https://www.slicer.org/w/api.php?action=feedcontributions&feedformat=atom&user=Zhangfanmark 2026-08-09T04:06:39Z User contributions MediaWiki 1.33.0 https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/SlicerDMRI&diff=47264 2016-10-11T20:54:45Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {|<br /> |<br /> [[Image:DMRI 3D SLICER-icon.png]]<br /> |<br /> Extension: [[Documentation/{{documentation/version}}/Extensions/SlicerDMRI|SlicerDMRI]]&lt;br&gt;<br /> Acknowledgments:<br /> This work is supported in part by the National Cancer Institute and the National Institute of Biomedical Imaging and Bioengineering of the National Institutes of Health through the following grants:<br /> * NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research)<br /> * NIH P41EB015898 (National Center for Image-Guided Therapy)<br /> * NIH P41EB015902 (Neuroimaging Analysis Center)<br /> * National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> Major Contributors: Lauren J. O'Donnell ({{collaborator|name|spl}}), Isaiah Norton (Brigham and Women's Hospital), Raul San Jose Estepar (Brigham and Women's Hospital), Carl-Fredrik Westin (Brigham and Women's Hospital), Alex Yarmarkovich&lt;br&gt;<br /> <br /> License: [http://www.slicer.org/pages/LicenseText Slicer License]<br /> <br /> Website: [http://slicerdmri.github.io SlicerDMRI]<br /> |}<br /> <br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:NCIGT-Logo.jpeg|NCIGT<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> <br /> SlicerDMRI extension hosts various modules to facilitate <br /> * processing and management of diffusion MRI image data<br /> * utilizing diffusion MRI tractography for neuroscience studies and for planning image-guided interventions<br /> * quantitative analysis of diffusion MRI data<br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: Creates a brain mask from a diffusion weighted image volume<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: Estimates the diffusion tensor model from diffusion weighted images.<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]: Computes scalar measures from a diffusion tensor dataset. <br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]: Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer. <br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: Implements DT image resampling through the use of itk Transforms.<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: Implements image and vector-image resampling through the use of its Transforms.<br /> * [[Documentation/Nightly/Modules/TractographyDICOMLoad|Tractography DICOM Load]]: Utility for DICOM TrackSet conversion to Slicer-style VTK tractography.<br /> * [[Documentation/Nightly/Modules/TractographyDICOMSave|Tractography DICOM Save]]: Utility for conversion of Slicer-style VTK tractography to DICOM TrackSet.<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: Allows the user to modify the display of diffusion tractography.<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]: Computes whole-fiber scalar measurements from a directory of VTK fiber bundle files<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: Allows a user to select tracts passing or not passing through single or multiple labels. <br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: Seeds tractography from a Diffusion Tensor Image (DTI) within a region defined by a label map.<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: Allows interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]: Allows a user to set the specified label value in the label map at every vertex in each of the fibers in a bundle.<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: Traces fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methodology. <br /> * DWI to Full Brain Tractography: <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> [1] O’Donnell LJ, Westin CF. An introduction to diffusion tensor image analysis. Neurosurgery clinics of North America. 2011 Apr 30;22(2):185-96.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> * SlicerSlicerDMRI organization page on github: https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> [[Category:Documentation/{{documentation/version}}/Modules/Diffusion]]<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47263 2016-10-11T20:52:01Z

<p>Zhangfanmark: /* Utilities */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_Process|Process]]<br /> ** [[#Modules_by_category_Diffusion_Quantify|Quantify]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> *** [[#Modules_by_category_Diffusion_Tractography_Region_based|Region-based]]<br /> ** [[#Modules_by_category_Diffusion_Utilities|Utilities]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography_Region_based'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Modules/TractographyDICOMLoad|Tractography DICOM Load]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDICOMSave|Tractography DICOM Save]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> <br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47262 2016-10-11T20:44:11Z

<p>Zhangfanmark: /* Utilities */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_Process|Process]]<br /> ** [[#Modules_by_category_Diffusion_Quantify|Quantify]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> *** [[#Modules_by_category_Diffusion_Tractography_Region_based|Region-based]]<br /> ** [[#Modules_by_category_Diffusion_Utilities|Utilities]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography_Region_based'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> <br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/SlicerDMRI&diff=47261 2016-10-11T20:43:52Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {|<br /> |<br /> [[Image:DMRI 3D SLICER-icon.png]]<br /> |<br /> Extension: [[Documentation/{{documentation/version}}/Extensions/SlicerDMRI|SlicerDMRI]]&lt;br&gt;<br /> Acknowledgments:<br /> This work is supported in part by the National Cancer Institute and the National Institute of Biomedical Imaging and Bioengineering of the National Institutes of Health through the following grants:<br /> * NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research)<br /> * NIH P41EB015898 (National Center for Image-Guided Therapy)<br /> * NIH P41EB015902 (Neuroimaging Analysis Center)<br /> * National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> Major Contributors: Lauren J. O'Donnell ({{collaborator|name|spl}}), Isaiah Norton (Brigham and Women's Hospital), Raul San Jose Estepar (Brigham and Women's Hospital), Carl-Fredrik Westin (Brigham and Women's Hospital), Alex Yarmarkovich&lt;br&gt;<br /> <br /> License: [http://www.slicer.org/pages/LicenseText Slicer License]<br /> <br /> Website: [http://slicerdmri.github.io SlicerDMRI]<br /> |}<br /> <br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:NCIGT-Logo.jpeg|NCIGT<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> <br /> SlicerDMRI extension hosts various modules to facilitate <br /> * processing and management of diffusion MRI image data<br /> * utilizing diffusion MRI tractography for neuroscience studies and for planning image-guided interventions<br /> * quantitative analysis of diffusion MRI data<br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: Creates a brain mask from a diffusion weighted image volume<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: Estimates the diffusion tensor model from diffusion weighted images.<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]: Computes scalar measures from a diffusion tensor dataset. <br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]: Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer. <br /> * DWI to Full Brain Tractography: <br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: Implements DT image resampling through the use of itk Transforms.<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: Implements image and vector-image resampling through the use of its Transforms.<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: Allows the user to modify the display of diffusion tractography.<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]: Computes whole-fiber scalar measurements from a directory of VTK fiber bundle files<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: Allows a user to select tracts passing or not passing through single or multiple labels. <br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: Seeds tractography from a Diffusion Tensor Image (DTI) within a region defined by a label map.<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: Allows interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]: Allows a user to set the specified label value in the label map at every vertex in each of the fibers in a bundle.<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: Traces fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methodology. <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> [1] O’Donnell LJ, Westin CF. An introduction to diffusion tensor image analysis. Neurosurgery clinics of North America. 2011 Apr 30;22(2):185-96.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> * SlicerSlicerDMRI organization page on github: https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> [[Category:Documentation/{{documentation/version}}/Modules/Diffusion]]<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/SlicerDMRI&diff=47259 2016-10-11T19:56:10Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {|<br /> |<br /> [[Image:DMRI 3D SLICER-icon.png]]<br /> |<br /> Extension: [[Documentation/{{documentation/version}}/Extensions/SlicerDMRI|SlicerDMRI]]&lt;br&gt;<br /> Acknowledgments:<br /> This work is supported in part by the National Cancer Institute and the National Institute of Biomedical Imaging and Bioengineering of the National Institutes of Health through the following grants:<br /> * NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research)<br /> * NIH P41EB015898 (National Center for Image-Guided Therapy)<br /> * NIH P41EB015902 (Neuroimaging Analysis Center)<br /> * National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> Major Contributors: Lauren J. O'Donnell ({{collaborator|name|spl}}), Isaiah Norton (Brigham and Women's Hospital), Raul San Jose Estepar (Brigham and Women's Hospital), Carl-Fredrik Westin (Brigham and Women's Hospital), Alex Yarmarkovich&lt;br&gt;<br /> <br /> License: [http://www.slicer.org/pages/LicenseText Slicer License]<br /> |}<br /> <br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:NCIGT-Logo.jpeg|NCIGT<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> <br /> SlicerDMRI extension hosts various modules to facilitate <br /> * processing and management of diffusion MRI image data<br /> * utilizing diffusion MRI tractography for neuroscience studies and for planning image-guided interventions<br /> * quantitative analysis of diffusion MRI data<br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> * DICOM2Full Brain Tractography: <br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: Creates a brain mask from a diffusion weighted image volume<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: Estimates the diffusion tensor model from diffusion weighted images.<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]: Computes scalar measures from a diffusion tensor dataset. <br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]: Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer. <br /> * DWI to Full Brain Tractography: <br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: Implements DT image resampling through the use of itk Transforms.<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: Implements image and vector-image resampling through the use of its Transforms.<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: Allows the user to modify the display of diffusion tractography.<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]: Computes whole-fiber scalar measurements from a directory of VTK fiber bundle files<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: Allows a user to select tracts passing or not passing through single or multiple labels. <br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: Seeds tractography from a Diffusion Tensor Image (DTI) within a region defined by a label map.<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: Allows interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]: Allows a user to set the specified label value in the label map at every vertex in each of the fibers in a bundle.<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: Traces fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methodology. <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> [1] O’Donnell LJ, Westin CF. An introduction to diffusion tensor image analysis. Neurosurgery clinics of North America. 2011 Apr 30;22(2):185-96.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> * SlicerSlicerDMRI organization page on github: https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> [[Category:Documentation/{{documentation/version}}/Modules/Diffusion]]<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47258 2016-10-11T19:54:51Z

<p>Zhangfanmark: /* Modules by category */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_Process|Process]]<br /> ** [[#Modules_by_category_Diffusion_Quantify|Quantify]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> *** [[#Modules_by_category_Diffusion_Tractography_Region_based|Region-based]]<br /> ** [[#Modules_by_category_Diffusion_Utilities|Utilities]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography_Region_based'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> <br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/SlicerDMRI&diff=47257 2016-10-11T19:42:49Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {|<br /> |<br /> [[Image:DMRI 3D SLICER-icon.png]]<br /> |<br /> Extension: [[Documentation/{{documentation/version}}/Extensions/SlicerDMRI|SlicerDMRI]]&lt;br&gt;<br /> Acknowledgments:<br /> This work is supported in part by the National Cancer Institute and the National Institute of Biomedical Imaging and Bioengineering of the National Institutes of Health through the following grants:<br /> * NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research)<br /> * NIH P41EB015898 (National Center for Image-Guided Therapy)<br /> * NIH P41EB015902 (Neuroimaging Analysis Center)<br /> * National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> Major Contributors: Lauren J. O'Donnell ({{collaborator|name|spl}}), Isaiah Norton (Brigham and Women's Hospital), Raul San Jose Estepar (Brigham and Women's Hospital), Carl-Fredrik Westin (Brigham and Women's Hospital), Alex Yarmarkovich&lt;br&gt;<br /> <br /> License: [http://www.slicer.org/pages/LicenseText Slicer License]<br /> |}<br /> <br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:NCIGT-Logo.jpeg|NCIGT<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Extension Description}}<br /> <br /> SlicerDMRI extension hosts various modules to facilitate <br /> * processing and management of diffusion MRI image data<br /> * utilizing diffusion MRI tractography for neuroscience studies and for planning image-guided interventions<br /> * quantitative analysis of diffusion MRI data<br /> <br /> {{documentation/{{documentation/version}}/extension-section|Modules}}<br /> <br /> * DICOM2Full Brain Tractography: <br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]]: <br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]]: <br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]]:<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]]:<br /> * DWI to Full Brain Tractography:<br /> * [[Documentation/{{documentation/version}}/Modules/FiberTractMeasurements |Fiber Tract Measurements]]: module to quantify diffusion measures from fiber tracts<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]: <br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]]: <br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]]: <br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]]:<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]]: <br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]]: <br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]]: <br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]]:<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]: <br /> <br /> {{documentation/{{documentation/version}}/extension-section|References}}<br /> [1] O’Donnell LJ, Westin CF. An introduction to diffusion tensor image analysis. Neurosurgery clinics of North America. 2011 Apr 30;22(2):185-96.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/extension-section|Information for Developers}}<br /> * SlicerSlicerDMRI organization page on github: https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> [[Category:Documentation/{{documentation/version}}/Modules/Diffusion]]<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47256 2016-10-11T19:32:28Z

<p>Zhangfanmark: /* Modules by category */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_Process|Process]]<br /> ** [[#Modules_by_category_Diffusion_Quantify|Quantify]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> *** [[#Modules_by_category_Diffusion_Tractography_Region_based|Tractography]]<br /> ** [[#Modules_by_category_Diffusion_Utilities|Utilities]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography_Region_based'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> <br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47255 2016-10-11T19:30:31Z

<p>Zhangfanmark: /* Diffusion */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_FiberAnalysis|Fiber Analysis]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography_Region_based'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/ModuleExtensionListing&diff=47254 2016-10-11T19:25:56Z

<p>Zhangfanmark: /* Diffusion */</p> <hr /> <div>__NOTOC__<br /> &lt;noinclude&gt;{{:Documentation/Nightly/ModuleExtensionListing/TOC}}&lt;/noinclude&gt;<br /> = Modules by category =<br /> 36 categories:<br /> * [[#Modules_by_category_Cardiac|Cardiac]]<br /> * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]<br /> * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]<br /> ** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]<br /> *** [[#Modules_by_category_Toolkit_Particles|Particles]]<br /> *** [[#Modules_by_category_Toolkit_Processing|Processing]]<br /> *** [[#Modules_by_category_Toolkit_Quantification|Quantification]]<br /> *** [[#Modules_by_category_Toolkit_Registration|Registration]]<br /> *** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]<br /> *** [[#Modules_by_category_Toolkit_Utils|Utils]]<br /> * [[#Modules_by_category_CIP|CIP]]<br /> * [[#Modules_by_category_Converters|Converters]]<br /> * [[#Modules_by_category_Developer_Tools|Developer Tools]]<br /> ** [[#Modules_by_category_Developer_Tools_DICOM_Plugins|DICOM Plugins]]<br /> ** [[#Modules_by_category_Developer_Tools_Editor_Extensions|Editor Extensions]]<br /> ** [[#Modules_by_category_Developer_Tools_Matlab|Matlab]]<br /> * [[#Modules_by_category_Diffusion|Diffusion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Data_Conversion|Diffusion Data Conversion]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Tensor_Images|Diffusion Tensor Images]]<br /> ** [[#Modules_by_category_Diffusion_Diffusion_Weighted_Images|Diffusion Weighted Images]]<br /> ** [[#Modules_by_category_Diffusion_FiberAnalysis|Fiber Analysis]]<br /> ** [[#Modules_by_category_Diffusion_Tractography|Tractography]]<br /> * [[#Modules_by_category_Editor_Effects|Editor Effects]]<br /> * [[#Modules_by_category_EditorEffect|Editor Effect]]<br /> * [[#Modules_by_category_Endoscopy|Endoscopy]]<br /> * [[#Modules_by_category_Examples|Examples]]<br /> * [[#Modules_by_category_Exporter|Exporter]]<br /> * [[#Modules_by_category_Filter|Filter]]<br /> * [[#Modules_by_category_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Filtering_Arithmetic|Arithmetic]]<br /> ** [[#Modules_by_category_Filtering_Denoising|Denoising]]<br /> ** [[#Modules_by_category_Filtering_Morphology|Morphology]]<br /> * [[#Modules_by_category_IGT|IGT]]<br /> * [[#Modules_by_category_Informatics|Informatics]]<br /> ** [[#Modules_by_category_Informatics_Converters|Converters]]<br /> * [[#Modules_by_category_Legacy|Legacy]]<br /> ** [[#Modules_by_category_Legacy_Converters|Converters]]<br /> ** [[#Modules_by_category_Legacy_Filtering|Filtering]]<br /> ** [[#Modules_by_category_Legacy_Registration|Registration]]<br /> ** [[#Modules_by_category_Legacy_Work_in_Progress|Work in Progress]]<br /> *** [[#Modules_by_category_Work_in_Progress_Diffusion_Tensor|Diffusion Tensor]]<br /> **** [[#Modules_by_category_Diffusion_Tensor_Test|Test]]<br /> * [[#Modules_by_category_Margin_Calculator|Margin Calculator]]<br /> * [[#Modules_by_category_Mesh_Generation|Mesh Generation]]<br /> * [[#Modules_by_category_MeshGeneration|Mesh Generation]]<br /> * [[#Modules_by_category_Microscopy|Microscopy]]<br /> * [[#Modules_by_category_MultiVolume_Support|Multi Volume Support]]<br /> * [[#Modules_by_category_Plastimatch|Plastimatch]]<br /> ** [[#Modules_by_category_Plastimatch_Registration|Registration]]<br /> ** [[#Modules_by_category_Plastimatch_Utilities|Utilities]]<br /> * [[#Modules_by_category_Quantification|Quantification]]<br /> ** [[#Modules_by_category_Quantification_ChangeQuantification|Change Quantification]]<br /> * [[#Modules_by_category_Radiotherapy|Radiotherapy]]<br /> * [[#Modules_by_category_Registration|Registration]]<br /> ** [[#Modules_by_category_Registration_CMF_Registration|CMF Registration]]<br /> *** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]<br /> ** [[#Modules_by_category_Registration_Label_Registration|Label Registration]]<br /> ** [[#Modules_by_category_Registration_Specialized|Specialized]]<br /> * [[#Modules_by_category_Segmentation|Segmentation]]<br /> ** [[#Modules_by_category_Segmentation_Specialized|Specialized]]<br /> * [[#Modules_by_category_Sequences|Sequences]]<br /> * [[#Modules_by_category_Shape_Analysis|Shape Analysis]]<br /> * [[#Modules_by_category_Slicelets|Slicelets]]<br /> * [[#Modules_by_category_Surface_Models|Surface Models]]<br /> * [[#Modules_by_category_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Testing|Testing]]<br /> ** [[#Modules_by_category_Testing_IGT_Tests|IGT Tests]]<br /> ** [[#Modules_by_category_Testing_SlicerRT_Tests|Slicer RT Tests]]<br /> ** [[#Modules_by_category_Testing_TestCases|Test Cases]]<br /> * [[#Modules_by_category_Utilities|Utilities]]<br /> ** [[#Modules_by_category_Utilities_BRAINS|BRAINS]]<br /> * [[#Modules_by_category_Vascular_Modeling_Toolkit|Vascular Modeling Toolkit]]<br /> * [[#Modules_by_category_Wizards|Wizards]]<br /> &lt;span id='Modules_by_category_Cardiac'&gt;&lt;/span&gt;<br /> == Cardiac ==<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Cardiac_MRI_Toolkit'&gt;&lt;/span&gt;<br /> == Cardiac MRI Toolkit ==<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform'&gt;&lt;/span&gt;<br /> == Chest Imaging Platform ==<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Modules'&gt;&lt;/span&gt;<br /> === Modules ===<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'&gt;&lt;/span&gt;<br /> === Toolkit ===<br /> &lt;span id='Modules_by_category_Toolkit_Particles'&gt;&lt;/span&gt;<br /> ==== Particles ====<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Processing'&gt;&lt;/span&gt;<br /> ==== Processing ====<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Quantification'&gt;&lt;/span&gt;<br /> ==== Quantification ====<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Registration'&gt;&lt;/span&gt;<br /> ==== Registration ====<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Segmentation'&gt;&lt;/span&gt;<br /> ==== Segmentation ====<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Toolkit_Utils'&gt;&lt;/span&gt;<br /> ==== Utils ====<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CIP'&gt;&lt;/span&gt;<br /> == CIP ==<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Converters'&gt;&lt;/span&gt;<br /> == Converters ==<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools'&gt;&lt;/span&gt;<br /> == Developer Tools ==<br /> * [[Documentation/Nightly/Modules/Cameras|Cameras]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Node Modified Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/DebuggingTools|Py Dev Remote Debug]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DebuggingTools|Debugging Tools]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtensionStats|Extension Stats]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DeveloperToolsForExtensions|Developer Tools For Extensions]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EventBroker|Event Broker]]<br /> * Double Arrays &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_DICOM_Plugins'&gt;&lt;/span&gt;<br /> === DICOM Plugins ===<br /> * Dicom Ultrasound Plugin<br /> * DICOMSegmentation Plugin<br /> * DICOMSlicer Data Bundle Plugin<br /> * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]<br /> * DICOMDiffusion Volume Plugin<br /> * DICOMLongitudinal PETCTPlugin<br /> * Dicom Sro Import Plugin<br /> * DICOMScalar Volume Plugin<br /> * [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]<br /> * Dicom Rt Import Export Plugin<br /> * Multi Volume Importer Plugin<br /> &lt;span id='Modules_by_category_Developer_Tools_Editor_Extensions'&gt;&lt;/span&gt;<br /> === Editor Extensions ===<br /> * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] &lt;small&gt;(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Developer_Tools_Matlab'&gt;&lt;/span&gt;<br /> === Matlab ===<br /> * [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion'&gt;&lt;/span&gt;<br /> == Diffusion ==<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'&gt;&lt;/span&gt;<br /> === Diffusion Data Conversion ===<br /> * [[Documentation/Nightly/Modules/DWIConverter|DWIConverter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'&gt;&lt;/span&gt;<br /> === Diffusion Tensor Images ===<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'&gt;&lt;/span&gt;<br /> === Diffusion Weighted Images ===<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Process'&gt;&lt;/span&gt;<br /> === Process ===<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Brain Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|Diffusion Tensor Estimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Quantify'&gt;&lt;/span&gt;<br /> === Quantify ===<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Maps]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Tractography Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> === Tractography ===<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyInteractiveSeeding|Tractography Seeding]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Diffusion_Tractography'&gt;&lt;/span&gt;<br /> ==== Region-based ====<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography ROI Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleLabelSelect|Tractography ROI Selection]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Diffusion_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DWI to Full Brain Tractography &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Tractography to Mask Image]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> <br /> &lt;span id='Modules_by_category_Editor_Effects'&gt;&lt;/span&gt;<br /> <br /> == Editor Effects ==<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_EditorEffect'&gt;&lt;/span&gt;<br /> == EditorEffect ==<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Endoscopy'&gt;&lt;/span&gt;<br /> == Endoscopy ==<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Examples'&gt;&lt;/span&gt;<br /> == Examples ==<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Exporter'&gt;&lt;/span&gt;<br /> == Exporter ==<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filter'&gt;&lt;/span&gt;<br /> == Filter ==<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering'&gt;&lt;/span&gt;<br /> == Filtering ==<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Arithmetic'&gt;&lt;/span&gt;<br /> === Arithmetic ===<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Denoising'&gt;&lt;/span&gt;<br /> === Denoising ===<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Filtering_Morphology'&gt;&lt;/span&gt;<br /> === Morphology ===<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_IGT'&gt;&lt;/span&gt;<br /> == IGT ==<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics'&gt;&lt;/span&gt;<br /> == Informatics ==<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Informatics_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy'&gt;&lt;/span&gt;<br /> == Legacy ==<br /> &lt;span id='Modules_by_category_Legacy_Converters'&gt;&lt;/span&gt;<br /> === Converters ===<br /> * [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Filtering'&gt;&lt;/span&gt;<br /> === Filtering ===<br /> * [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * Test Grid Transform Registration &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Legacy_Work_in_Progress'&gt;&lt;/span&gt;<br /> === Work in Progress ===<br /> &lt;span id='Modules_by_category_Work_in_Progress_Diffusion_Tensor'&gt;&lt;/span&gt;<br /> ==== Diffusion Tensor ====<br /> &lt;span id='Modules_by_category_Diffusion_Tensor_Test'&gt;&lt;/span&gt;<br /> ===== Test =====<br /> * Diffusion Tensor Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Margin_Calculator'&gt;&lt;/span&gt;<br /> == Margin Calculator ==<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Mesh_Generation'&gt;&lt;/span&gt;<br /> == Mesh Generation ==<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MeshGeneration'&gt;&lt;/span&gt;<br /> == MeshGeneration ==<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Microscopy'&gt;&lt;/span&gt;<br /> == Microscopy ==<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_MultiVolume_Support'&gt;&lt;/span&gt;<br /> == MultiVolume Support ==<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch'&gt;&lt;/span&gt;<br /> == Plastimatch ==<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Registration'&gt;&lt;/span&gt;<br /> === Registration ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Plastimatch_Utilities'&gt;&lt;/span&gt;<br /> === Utilities ===<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification'&gt;&lt;/span&gt;<br /> == Quantification ==<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Quantification_ChangeQuantification'&gt;&lt;/span&gt;<br /> === ChangeQuantification ===<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Radiotherapy'&gt;&lt;/span&gt;<br /> == Radiotherapy ==<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration'&gt;&lt;/span&gt;<br /> == Registration ==<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_CMF_Registration'&gt;&lt;/span&gt;<br /> === CMF Registration ===<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'&gt;&lt;/span&gt;<br /> ==== Voxelbase Registration ====<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Label_Registration'&gt;&lt;/span&gt;<br /> === Label Registration ===<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Registration_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation'&gt;&lt;/span&gt;<br /> == Segmentation ==<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentEditor|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Segmentation_Specialized'&gt;&lt;/span&gt;<br /> === Specialized ===<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Sequences'&gt;&lt;/span&gt;<br /> <br /> == Sequences ==<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Shape_Analysis'&gt;&lt;/span&gt;<br /> == Shape Analysis ==<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Slicelets'&gt;&lt;/span&gt;<br /> == Slicelets ==<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Surface_Models'&gt;&lt;/span&gt;<br /> == Surface Models ==<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_TestCases'&gt;&lt;/span&gt;<br /> == TestCases ==<br /> * SEGExporter Self Test<br /> &lt;span id='Modules_by_category_Testing'&gt;&lt;/span&gt;<br /> == Testing ==<br /> * CLI4Test<br /> * Threshold Threading Test<br /> * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * Slicer MRBSave Restore Check Paths Test<br /> * CLIROITest &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * Performance Tests<br /> * Slicer MRBMultiple Save Restore Test<br /> * Slicer MRBTest<br /> * SEGExporter Self Test<br /> * Self Tests<br /> * Slicer MRBMultiple Save Restore Loop Test<br /> &lt;span id='Modules_by_category_Testing_IGT_Tests'&gt;&lt;/span&gt;<br /> === IGT Tests ===<br /> * Breach Warning Self Test<br /> * Watchdog Self Test<br /> &lt;span id='Modules_by_category_Testing_SlicerRT_Tests'&gt;&lt;/span&gt;<br /> === SlicerRT Tests ===<br /> * IGRTWorkflow Self Test<br /> * Dicom Rt Import Self Test<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Testing_TestCases'&gt;&lt;/span&gt;<br /> === TestCases ===<br /> * Atlas Tests<br /> * Add Storable Data After Scene View Test<br /> * test tractography display<br /> * RSNAQuant Tutorial<br /> * Neurosurgical Planning Tutorial Markups Self Test<br /> * Change Tracker Self Test<br /> * Fiducial Layout Switch Bug1914<br /> * Graph Cut Segment Self Test<br /> * Charting &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] &lt;small&gt;(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures] extension)&lt;/small&gt;<br /> * fiber visibility crash2438<br /> * RSNAVis Tutorial<br /> * JRC2013Vis<br /> * Add Many Markups Fiducial Test<br /> * Slicer4Minute &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Crop Volume Self Test<br /> * Slice Link Logic &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Volume Rendering Scene Close &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * slicer Close Crash Bug2590<br /> * CLIEvent Test<br /> * Markups Widgets Self Test<br /> * Tables Self Test<br /> * Markups In Views Self Test<br /> * Two CLIs In Parallel Test<br /> * Subject Hierarchy Core Plugins Self Test<br /> * Subject Hierarchy Generic Self Test<br /> * Scene Performance &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * Markups In Compare Viewers Self Test<br /> * scene Import2428<br /> * RSNA2012Prostate Demo<br /> * DTINot Reproducible Issue3977<br /> * Two CLIs In ARow Test<br /> * Colors Scalar Bar Self Test<br /> * BRAINSFit Rigid Registration Crash Issue4139<br /> * View Controllers Slice Interpolation Bug1926<br /> &lt;span id='Modules_by_category_Utilities'&gt;&lt;/span&gt;<br /> == Utilities ==<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Utilities_BRAINS'&gt;&lt;/span&gt;<br /> === BRAINS ===<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Vascular_Modeling_Toolkit'&gt;&lt;/span&gt;<br /> == Vascular Modeling Toolkit ==<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> &lt;span id='Modules_by_category_Wizards'&gt;&lt;/span&gt;<br /> == Wizards ==<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> = Modules by name =<br /> 311 modules:<br /> * [http://www.nitrc.org/projects/abc ABC] &lt;small&gt;(cli, bundled in [http://www.nitrc.org/projects/abc ABC] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Airway Inspector] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AnglePlanes Angle Planes Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Annotations|Annotations]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Beams]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BodyCentricCubicMesh|Body Centric Cubic Mesh]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSDWICleanup &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSLabel Stats &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSResize &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSROIAuto &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSStrip Rotation &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * BRAINSTransform Convert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Breach Warning Light] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Centerline Computation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Body Composition] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Common] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Lesion Model] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP MIPViewer] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP PAARatio] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Parenchyma Subtype Training] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org CIP Trachea Stent Planning] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Classify Fissure Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut] &lt;small&gt;(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Colors|Colors]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Cross Sectional Area] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Distance Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Feature Strength] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Fissure Feature Vectors] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Compute Intensity Statistics] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Dicom] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Crop Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Data|Data]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataProbe|Data Probe]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DataStore|Data Store]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiceComputation|Dice Computation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/DiceComputation|Dice Computation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DICOM|DICOM]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * DICOM2Full Brain Tractography &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroExport|Dicom Sro Export]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DistanceMapBasedRegistration|Distance Map Based Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Dose Population Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Downsize|Downsize]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]] &lt;small&gt;(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)&lt;/small&gt;<br /> * [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] &lt;small&gt;(cli, bundled in [http://slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/DSC_MRI_Analysis DSCMRIAnalysis] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * DWIConvert &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/DWModeling|DWModeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/EasyClip|Easy Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Editor|Editor]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EMSegment|EMSegment]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Command Line &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * EMSegment Quick &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * EMSegment Transform To New Format &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Enhance Fissures In Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Execute System Command] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Chest Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Fissure Boundary From Lobe Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]] &lt;small&gt;(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Fast Grow Cut Segmenter] &lt;small&gt;(loadable, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * Fiber Bundle Label Select &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiberTractMeasurements|Fiber Tract Measurements]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Airway Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Connected Components] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Fissure Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Filter Vessel Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Find Patch Match] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Atlas Convex Hull] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Binary Thinning3D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Distance Map From Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Image Sub Volumes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lesion Segmentation] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Lobe Surface Models] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Median Filtered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate NLMFiltered Image] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Otsu Lung Cast] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Overlay Images] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Partial Lung Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Structures In Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Kappa2D] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Get Transformation Similarity Metric] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Interactive Segmenter] &lt;small&gt;(loadable, bundled in [http://publish.uwo.ca/~dchen285/GraphCutSegment/GraphCutSegment.html Graph Cut Segment] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Growing|Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/iGyne|i Gyne]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/IntensityDifferenceMetric|Intensity Difference Metric]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Interactive Lobe Segmentation] &lt;small&gt;(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * Island Removal &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Isodose|Isodose]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter KUtil] &lt;small&gt;(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Map From Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Level Set Segmentation] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Lump Nav] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Markups|Markups]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Mask Out Label Map Structures] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Chest Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MergeModels|Merge Models]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Merge Particle Data Sets] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/MeshToLabelMap|Mesh To Label Map]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Metafile Importer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelMaker|Model Maker]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Models|Models]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ModelToModelDistance|Model To Model Distance]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Motion Simulator Double Array]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/mpReview|mp Review Preprocessor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/mpReview|mp Review]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Particles Display] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)&lt;/small&gt;<br /> * Perform Metric Test &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perform Morphological] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Perturb Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Philips4d Us Dicom Patcher]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint] &lt;small&gt;(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PickAndPaint Pick And Paint Extension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer bspline]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|plastimatch slicer landwarp]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plastimatch Py]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Plm Register]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Q3DC|Q3DC]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Quality Control] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Dicom Write Tags] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read NRRDs Write VTK] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Vida Write CIP] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read VTKWrite NRRDs] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Image Data] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Read Write Region And Type Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Reformat|Reformat]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type] &lt;small&gt;(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Region Type Locations To ROIVolume] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Label Maps] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Register Lung Atlas] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remap Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Remove Particles From Particles Data Set] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample CT] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/ResampleDTIlogEuclidean|Resample DTIlog Euclidean]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Resample Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Rescale Label Map] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SampleData|Sample Data]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]] &lt;small&gt;(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SceneViews|Scene Views]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SEG2NRRD|SEG2NRRD]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Segmentations|Segmentations]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentComparison|Segment Comparison]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Segment Editor]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Segment Lung Lobes] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SegmentMorphology|Segment Morphology]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequence Browser]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/Sequences|Sequences]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerToKiwiExporter|Slicer To Kiwi Exporter]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Split Left Lung Right Lung] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceRegistration|Surface Registration]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]] &lt;small&gt;(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/MarginCalculator|Synthetic RTDose]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/MarginCalculator|Margin Calculator]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/T1Mapping|T1Mapping]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/T1Mapping|T1Mapping]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Tables|Tables]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]] &lt;small&gt;(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyDisplay|Tractography Display]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * Tractography Interactive Seeding &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [http://www.chestimagingplatform.org Transfer Region And Type Indices To From Points] &lt;small&gt;(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Transforms|Transforms]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]] &lt;small&gt;(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Units|Units]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerHeart|Valve View]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerHeart|Slicer Heart]] extension)&lt;/small&gt;<br /> * VBRAINSDemon Warp &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]] &lt;small&gt;(scripted, built-in)&lt;/small&gt;<br /> * [http://slicer.vmtk.org/ Vesselness Filtering] &lt;small&gt;(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/SlicerRT|Vff File Reader]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/ViewControllers|View Controllers]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [https://github.com/SlicerIGT/LumpNav Viewpoint] &lt;small&gt;(scripted, bundled in [https://github.com/SlicerIGT/LumpNav Lump Nav] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeRendering|Volume Rendering]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Volumes|Volumes]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] &lt;small&gt;(cli, built-in)&lt;/small&gt;<br /> * [https://github.com/Tomnl/Slicer-Wasp Wasp] &lt;small&gt;(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Watchdog|Watchdog]] &lt;small&gt;(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)&lt;/small&gt;<br /> * [[Documentation/Nightly/Modules/Welcome|Welcome]] &lt;small&gt;(loadable, built-in)&lt;/small&gt;<br /> * [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] &lt;small&gt;(scripted, bundled in [[Documentation/Nightly/Extensions/WindowLevelEffect|Window Level Effect]] extension)&lt;/small&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/DWIConverter&diff=46778 2016-08-05T18:48:09Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Vince Magnotta (UIowa)&lt;br&gt;<br /> Contributor1: Hans Johnson (UIowa)&lt;br&gt;<br /> Contributor2: Joy Matsui (UIowa)&lt;br&gt;<br /> Contributor3: Kent Williams (UIowa)&lt;br&gt;<br /> Contributor4: Mark Scully (Uiowa)&lt;br&gt;<br /> Contributor5: Xiaodong Tao (GE)&lt;br&gt;<br /> Contact: Kent Williams, &lt;email&gt;norman-k-williams@uiowa.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:Dwiconverter 1.png|DWIConverter inputs<br /> |Image:Dwiconverter 2.png|DWIConverter advanced parameters<br /> |Image:Dwiconvertor 3.png|Output DWI volume<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> <br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> * Loading DICOM diffusion MRI data into Slicer. <br /> * Conversion of diffusion weighted images (DWIs) from DICOM format to nrrd or nifti formats.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> * Tutorial: http://slicerdmri.github.io/docs/tutorials/DWIConverterTutorial.pdf<br /> * Test data: http://slicer.kitware.com/midas3/download/item/93008/SiemensTrioTim2.tar.gz<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> N/A<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> &lt;!-- {{documentation/{{documentation/version}}/module-developerinfo}} --&gt;<br /> * https://github.com/BRAINSia/BRAINSTools<br /> * http://wiki.na-mic.org/Wiki/index.php/NAMIC_Wiki:DTI:DICOM_for_DWI_and_DTI<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> &lt;!-- {{documentation/{{documentation/version}}/module-footer}} --&gt;<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Dwiconvertor_3.png&diff=46777 2016-08-05T18:46:10Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/UKFTractography&diff=46768 2016-08-05T18:04:47Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> {{documentation/{{documentation/version}}/module-acknowledgements}}<br /> <br /> <br /> Contact: &lt;email&gt;slicer-users@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> Website: https://github.com/pnlbwh/ukftractography&lt;br&gt;<br /> Website: http://slicerdmri.github.io/<br /> <br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:NAC-logo.png|NAC<br /> |Image:UKF 1.png|Arcuate fasciculus (AF) tract in the setting of edema [Chen et al, 2015]<br /> |Image:UKF 2.png|Corpus callosum (CC) tract<br /> }}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> <br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> <br /> We present a framework which uses an unscented Kalman filter for performing<br /> tractography. At each point on the fiber the most consistent direction is found<br /> as a mixture of previous estimates and of the local model.<br /> <br /> It is very easy to expand the framework and to implement new fiber representations <br /> for it. Currently it is possible to tract fibers using two different 1-, 2-, or 3-tensor <br /> methods. Both methods use a mixture of Gaussian tensors. One limits the diffusion <br /> ellipsoids to a cylindrical shape (the second and third eigenvalue are assumed to be <br /> identical) and the other one uses a full tensor representation.<br /> <br /> Authors: Yogesh Rathi (yogesh@bwh.harvard.edu), Stefan Lienhard, Yinpeng Li, Martin<br /> Styner, Ipek Oguz, Yundi Shi, Christian Baumgartner (c.f.baumgartner@gmail.com),<br /> Ryan Eckbo, Lauren O'Donnell, Jessica Lee <br /> <br /> &lt;!--<br /> Here comes a description what the module is good for. Explain briefly how it works and point to the [[documentation/{{documentation/version}}/Modules/{{documentation/modulename}}#References|references]] giving more details on the algorithm.<br /> <br /> If you are documenting a CLI, the description should be extracted from the corresponding XML description. This could be done automatically using the following wiki template:&lt;pre&gt;{{documentation/{{documentation/version}}/module-description}}<br /> <br /> {{documentation/{{documentation/version}}/module-description}}<br /> --&gt;<br /> <br /> <br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> * 1-Tensor tractography<br /> * 1-Tensor tractography with free water<br /> * 2-Tensor tractography<br /> * 2-Tensor tractography with free water<br /> * Neurite orientation dispersion and density imaging (NODDI)<br /> <br /> <br /> <br /> <br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> * UKF Tractography tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#UKF<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> <br /> <br /> <br /> Input/Output (IO)<br /> <br /> --dwiFile &lt;std::string&gt; Input diffusion weighted (DWI) volume<br /> <br /> --seedsFile &lt;std::string&gt; Seeds for diffusion. If not specified, full brain tractography will be performed, and the algorithm will start from every voxel in the brain mask where the Generalized Anisotropy is bigger than 0.18<br /> <br /> --labels &lt;std::vector&lt;int&gt;&gt; A vector of the ROI labels to be used. These are the voxel values where tractography should be seeded. (default: 1)<br /> <br /> --maskFile &lt;std::string&gt; Brain mask for diffusion tractography. Tracking will only be performed inside this mask. <br /> <br /> --tracts &lt;std::string&gt; Output fiber tracts generated with one tensor.<br /> <br /> <br /> <br /> Tractography Options<br /> <br /> --seedsPerVoxel &lt;int&gt; Tractography parameter used in all models: number of seeds per voxel. Each seed generates a fiber, thus using more seeds generates more fibers. In general use 1 or 2 seeds, and for a more thorough result use 5 or 10 (depending on your machine this may take up to 2 days to run). Default: 1. Range: 0-50. (default: 1)<br /> <br /> --seedFALimit&lt;double&gt; Tractography parameter used in all models. Seed points whose fractional anisotropy (FA) are below this value are excluded. Default: 0.18. Range: 0-1.<br /> <br /> --minFA &lt;double&gt; Tractography parameter used in tensor model. Tractography will stop when the fractional anisotropy (FA) of the tensor being tracked is less than this value. Note: make sure to also decrease the GA to track through lower anisotropy areas. This parameter is used only in tensor models. Default: 0.15. Range: 0-1.<br /> <br /> --minGA &lt;double&gt; Tractography parameter used in all models. Tractography will stop when the generalized anisotropy (GA) is less than this value. GA is a normalized variance of the input signals (so it does not depend on any model). Note: to extend tracking through low anisotropy areas, this parameter is often more effective than the minFA. This parameter is used by both tensor and NODDI models. Default: 0.1. Range: 0-1. <br /> <br /> --numThreads &lt;int&gt; Tractography parameter used in all models. Number of threads used during computation. Set to the number of cores on your workstation for optimal speed. If left undefined, the number of cores detected will be used.<br /> <br /> --numTensor &lt;1|2|3&gt; Number of tensors (tensor model) or orientations (NODDI model) used. (default: 2)<br /> <br /> --stepLength &lt;double&gt; Tractography parameter used in all models. Step size when conducting tractography (in mm). Default: 0.3. Range: 0.1-1.<br /> <br /> --Qm &lt;double&gt; Rate of change of tensor direction/orientation. UKF data fitting parameter for tensor or NODDI model: Process noise for angles/direction. Defaults: Noddi-0.001; Single tensor-0.005; other-0.001. Suggested Range: 0.00001 - 0.25. Default of 0.0 indicates the program will assign value based on other model parameters.<br /> <br /> --recordLength &lt;double&gt; Tractography parameter used in all models. Step size between points saved along fibers. Default: 0.9. Range: 0.1-4.<br /> <br /> --maxHalfFiberLength &lt;double&gt; Tractography parameter used in all models. The max length limit of the half fibers generated during tractography. A fiber is &quot;half&quot; when the tractography goes in only one direction from one seed point at a time. Default: 250 mm. Range: 1-500 mm.<br /> <br /> --recordNMSE Record output from data fitting: Store normalized mean square error (NMSE) along fibers. <br /> <br /> <br /> Tensor Model<br /> <br /> --freeWater Adds a term for free water diffusion to the model. The free water model is a tensor with all 3 eigenvalues equal to the diffusivity of free water (0.003). To output the free water fraction, make sure to use the &quot;save free water&quot; parameter.<br /> <br /> --recordFA Record output from tensor model: Save fractional anisotropy (FA) of the tensor(s). Attaches field 'FA' or 'FA1' and 'FA2' for 2-tensor case to fiber.<br /> <br /> --recordTrace Record output from tensor model: Save the trace of the tensor(s). Attaches field 'Trace' or 'Trace1' and 'Trace2' for 2-tensor case to fiber.<br /> <br /> --recordFreeWater Record output from tensor plus free water model: Save the fraction of free water. Attaches field 'FreeWater' to fiber.<br /> <br /> --recordTensors Record output from tensor model: Save the tensors that were computed during tractography (if using tensor model). The fields will be called 'TensorN', where N is the tensor number. Recording the tensors enables Slicer to color the fiber bundles by FA, orientation, and so on. Recording the tensors also enables quantitative analyses.<br /> <br /> --Ql &lt;double&gt; UKF data fitting parameter for tensor model: rate of change of eigenvalues. Defaults: 1 tensor-300 ; 2 tensor-50 ; 3 tensor-100. Suggested Range: 1-1000. Default of 0.0 indicates the program will assign value based on other model parameters.<br /> <br /> --Qw &lt;double&gt; UKF data fitting parameter for tensor plus free water model: Process noise for free water weights, ignored if no free water estimation. Defaults: 1 tensor-0.0025; 2 tensor-0.0015. Suggested Range: 0.00001-0.25. Default of 0.0 indicates the program will assign value based on other model parameters.<br /> <br /> <br /> NODDI Model: <br /> <br /> --noddi Use neurite orientation dispersion and density imaging (NODDI) model instead of tensor model.<br /> <br /> --recordVic Save NODDI volume fraction of intra-cellular compartment along fibers. <br /> <br /> --recordKappa Save NODDI concentration parameter that measures the extent of orientation dispersion.<br /> <br /> --recordViso Save NODDI volume traction of CSF compartment along fibers.<br /> <br /> --Qkappa &lt;double&gt; UKF data fitting parameter for NODDI model: Rate of change of kappa value. Higher kappa values indicate more fiber dispersion. Default: 0.01.<br /> <br /> --Qvic &lt;double&gt; UKF data fitting parameter for NODDI model: Rate of change of volume fraction of intracellular component. Default: 0.004<br /> <br /> <br /> Signal Parameters (Expert Only)<br /> <br /> --Rs &lt;double&gt; Expected noise in signal. This is used by the UKF method to decide how much to trust the data. This should be increased for very noisy data or reduced for high quality data. Defaults: single tensor/orientation-0.01; other-0.02. Suggested Range: 0.001-0.25. Default of 0.0 indicates the program will assign value based on other model parameters.<br /> <br /> <br /> Debug/Develop Only<br /> <br /> --sigmaSignal &lt;double&gt; igma for Gaussian kernel used to interpolate the signal at sub-voxel locations. Default: 0.0<br /> <br /> --recordState Store the states along the fiber. Will generate field 'state'. The state is the model for UKF. In the case of the two tensor model, it is a ten-parameter vector.<br /> <br /> --recordCovariance Store the covariance matrix along the fiber. Will generate field 'covariance' in fiber. This is the covariance from the unscented Kalman filter.<br /> <br /> --fullTensorModel Use the full tensor model instead of the default model. The default model has both smaller eigenvalues equal, whereas the full model allows 3 different eigenvalues.<br /> <br /> --maxBranchingAngle &lt;double&gt; Maximum branching angle, in degrees. When using multiple tensors, a new branch will be created when the tensors' major directions form an angle between (minBranchingAngle, maxBranchingAngle). Branching is supressed when this maxBranchingAngle is set to 0.0. Default: 0.0. Range: 0-90.<br /> <br /> --minBranchingAngle &lt;double&gt; Minimum branching angle, in degrees. When using multiple tensors, a new branch will be created when the tensors' major directions form an angle between (minBranchingAngle, maxBranchingAngle). Default: 0. Range: 0-90.<br /> <br /> --tractsWithSecondTensor &lt;double&gt; Tracts generated, with second tensor output (if there is one)<br /> <br /> --storeGlyphs Store tensors' main directions as two-point lines in a separate file named glyphs_{tracts}. When using multiple tensors, only the major tensors' main directions are stored<br /> <br /> <br /> Tractography Command Line Options<br /> <br /> --returnparameterfile &lt;std::string&gt; Filename in which to write simple return parameters (int, float, int-vector, etc.) as opposed to bulk return parameters (image, geometry, transform, measurement, table).<br /> <br /> --processinformationaddress &lt;std::string&gt; Address of a structure to store process information (progress, abort, etc.). (default: 0)<br /> <br /> --xml Produce xml description of command line arguments.<br /> <br /> --echo Echo the command line arguments.<br /> <br /> --, --ignore_rest Ignores the rest of the labeled arguments following this flag.<br /> <br /> --version Displays version information and exits.<br /> <br /> -h, --help Displays usage information and exits. <br /> <br /> <br /> <br /> &lt;!--<br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> --&gt;<br /> <br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> N/A<br /> <br /> <br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Reference for 2-tensor tractography:<br /> * http://pnl.bwh.harvard.edu/pub/papers_html/MalcolmIEEETransMed10.html<br /> <br /> Reference for 1-tensor and 2-tensor + free-water:<br /> * C. Baumgartner, O. Michailovich, O. Pasternak, S. Bouix, J. Levitt, ME Shenton, C-F Westin, Y. Rathi,<br /> &quot;A unified tractography framework for comparing diffusion models on clinical scans&quot;: in Workshop<br /> on computational diffusion MRI, 2012.<br /> <br /> <br /> <br /> <br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/DWIConverter&diff=46767 2016-08-05T18:03:47Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Vince Magnotta (UIowa)&lt;br&gt;<br /> Contributor1: Hans Johnson (UIowa)&lt;br&gt;<br /> Contributor2: Joy Matsui (UIowa)&lt;br&gt;<br /> Contributor3: Kent Williams (UIowa)&lt;br&gt;<br /> Contributor4: Mark Scully (Uiowa)&lt;br&gt;<br /> Contributor5: Xiaodong Tao (GE)&lt;br&gt;<br /> Contact: Kent Williams, &lt;email&gt;norman-k-williams@uiowa.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:Dwiconverter 1.png|DWIConverter inputs<br /> |Image:Dwiconverter 2.png|DWIConverter advanced parameters<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> <br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> * Loading DICOM diffusion MRI data into Slicer. <br /> * Conversion of diffusion weighted images (DWIs) from DICOM format to nrrd or nifti formats.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> * Tutorial: http://slicerdmri.github.io/docs/tutorials/DWIConverterTutorial.pdf<br /> * Test data: http://slicer.kitware.com/midas3/download/item/93008/SiemensTrioTim2.tar.gz<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> N/A<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> N/A<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:UKF_2.png&diff=46764 2016-08-05T17:53:04Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:UKF_1.png&diff=46763 2016-08-05T17:52:34Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Dwiconverter_2.png&diff=46762 2016-08-05T17:52:15Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Dwiconverter_1.png&diff=46761 2016-08-05T17:51:51Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:CC_tract_label.png&diff=46753 2016-08-05T15:08:53Z

<p>Zhangfanmark: Zhangfanmark uploaded a new version of File:CC tract label.png</p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyInteractiveSeeding&diff=46467 2016-07-06T20:31:38Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> <br /> Title: Tractography Interactive Seeding<br /> <br /> Author(s)/Contributor(s): Alex Yarmarkovich, Steve Pieper, Demian Wassermann, Isaiah Norton (SPL, LMI, BWH, SlicerDMRI)<br /> <br /> License: 3D Slicer Contribution and Software License Agreement<br /> <br /> Acknowledgements: The SlicerDMRI developers gratefully acknowledge funding for this project provided by NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research), NIH P41EB015898 (National Center for Image-Guided Therapy) and NIH P41EB015902 (Neuroimaging Analysis Center), as well as the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> <br /> Contact: slicer-users@bwh.harvard.edu<br /> <br /> Website: http://slicerdmri.github.io/<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Fiducials seeding 1.png| Tractography Fiducial Seeding<br /> |Image:Fiducials seeding 2.png| Tractography Fiducial Seeding<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> This module is used for interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Create DTI fiber tracts starting from a list of fiducial points. Tracks created from a small number of fiducial points are are highly interactive and can be used in exploration mode while moving fiducials with the help of transformations. This mode can be useful in pre-op planning or for tracking tools during the surgery.<br /> * Use Case 2: Create DTI fiber tracts starting from vertices of a model. This mode can be useful for exploring tracts around a tumor model.<br /> * Use Case 2: Create DTI fiber tracts starting from a label map volume. Tracks created from a label map ROI can be used in interactive mode while modifying the label map using Editor module.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module:<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> * Slicer4 Neurosurgical Planning Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#Slicer4_Neurosurgical_Planning_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> ** Presets: select an Slicer4 or Slicer3 parameters setting for the module.<br /> * IO panel:<br /> ** Input DTI volume: select an existing tensor volume.<br /> ** Input FiducialList, Model, or Label Map: select an existing fiducial list, or a model, or a label map volume to be used as seeds for tracking.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> ** Enable Seeding Tracts: A toggle to enable/disable seeding. Disable if you want to change multiple parameters without re-running module at each step.<br /> * Seed Placement Option panel:<br /> ** Fiducial Region Size: The size of the box around each fiducial used for seeding (mm).<br /> ** Fiducial Seeding Step Size: Step between the seeding samples in the box (mm).<br /> ** Seed Selected Fiducials: Flag indicating whether to use only selected fiducials for seeding or all of them.<br /> ** Maximum Number of Seeds: Used with models to specify the limit of the number of vertices to be used for seeding.<br /> * Tractography Seeding Parameters panel:<br /> ** Minimum Path Length: Select only tracts that are longer than this value (mm).<br /> ** Maximum Path Length: Select only tracts that are shorter than this value (mm).<br /> ** Stopping Criteria: Select Linear Measure or FA to be used as stopping criteria.<br /> ** Stopping Value: Select Linear Measure or FA stopping value, tracking will stop when the value drops below this one.<br /> ** Stopping Track Curvature: Select the curvature stopping value in degree per mm, tracking will stop when the radius of curvature is smaller than this one.<br /> <br /> * Enabling Options panel:<br /> ** Create Tracts Initially As: Select Tubes or Lines<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> * UKF Tractography<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> * Interactive Diffusion Tensor Tractography Visualization for Neurosurgical Planning: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3112275/<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> * https://github.com/SlicerDMRI<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyDisplay&diff=46466 2016-07-06T20:26:10Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> Title: Tractography Display<br /> <br /> Author(s)/Contributor(s): Demian Wassermann, Isaiah Norton, Lauren O'Donnell, Steve Pieper, Alex Yarmarkovich (SPL, LMI, BWH, SlicerDMRI)<br /> <br /> License: 3D Slicer Contribution and Software License Agreement<br /> <br /> Acknowledgements: The SlicerDMRI developers gratefully acknowledge funding for this project provided by NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research), NIH P41EB015898 (National Center for Image-Guided Therapy) and NIH P41EB015902 (Neuroimaging Analysis Center), as well as the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> <br /> Contact: slicer-users@bwh.harvard.edu<br /> <br /> Website: http://slicerdmri.github.io/<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Tracts display.png|Tractography displayed in line, tube and glyphs<br /> |Image:Tracts on slices.png|Tractography displayed on slices <br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> Allows the user to modify the display of diffusion tractography. Examples are: change of color, display of the fractional anisotropy along the tract, display of the tracts as tubes or lines, interactive selection of the tracts, and cropping.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Change the scalar quantity displayed along the tract, like Fractional Anisotropy or Color By Orientation<br /> * Use Case 2: Display the tracts as lines or tubes<br /> * Use Case 3: Interactive selection or cropping of a certain bundle.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> [[image:2011-11-12-CroppingWholeBrainTractography.png|400px]]<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Simple Display<br /> ** Solid Tube Color: Display the tracts as tubes in solid color, if checked<br /> ** Lines: Display the tracts as lines<br /> ** Tubes: Display the tracts as tubes<br /> ** Tubes Slice: Show the tracts in the 2D view (Tubes Slice)<br /> ** Glyphs: Display glyphs representing the diffusion tensors along the tracts<br /> ** Tubes: Specify the solid tube color<br /> ** Percentage of Fibers Shown: Select how many of the total tracts in the bundle are shown. Useful for performance.<br /> * Fiber Bundle Selection: Perform selection and cropping of the tracts<br /> ** ROI for Fiber Selection: Select a ROI to use as an interactor with the tracts<br /> ** Disable/Positive/Negative ROI: Set the selection mode to ''Select everything'', ''Select the tracts traversing the ROI'' or ''Select the tracts not traversing the ROI''<br /> ** Interactive ROI: Allow the fiber selection and cropping in an interactive way<br /> ** ROI Visibility: Display the ROI<br /> ** Extract Bundle From ROI: Extract a new fiber bundle which contains only the selected ones<br /> ** Update Bundle From ROI: Update the current fiber bundle leaving only the selected ones<br /> *** Confirm update: Confirm update given the ROI<br /> ** Enable Interactive Edit: Allow to edit the ROI in an interactive way<br /> * Advanced Display: For the lines, tubes and glyphs<br /> ** Visibility: Toggle the visibility of the bundle<br /> ** Opacity: Change the transparency level of the bundle<br /> ** Fiber Bundle Coloring: Change the way the bundle is colored, one of &quot;Of Tensor Property&quot;, &quot;Of Scalar Value&quot;, &quot;Color Fibers By Mean Orientation&quot;, &quot;Color Fibers By Segment Orientation&quot;, &quot;Of Fiber Cluster Group ID&quot; or &quot;Solid Color&quot;.<br /> *** Auto W/L: Adjust the window level automatically<br /> ** Material Properties: Adjust Color, Opacity, Ambient, Diffuse, Specular, Power and Backface Culling of the displayed tracts. <br /> *** Preview: Color preview given the adjusted properties<br /> *** Presents: Select one of the predefined property sets<br /> <br /> &lt;!--<br /> | align=&quot;right&quot; |<br /> [[Image:screenshotBlankNotOptional.png|thumb|280px|Name of panel 1]]<br /> | align=&quot;right&quot; |<br /> [[Image:screenshotBlankNotOptional.png|thumb|280px|Name of panel 2]]<br /> |}<br /> --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Models<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> * https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyInteractiveSeeding&diff=46438 2016-07-06T16:51:46Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> <br /> Title: Tractography Interactive Seeding<br /> <br /> Author(s)/Contributor(s): Alex Yarmarkovich, Steve Pieper, Demian Wassermann, Isaiah Norton (SPL, LMI, BWH, SlicerDMRI)<br /> <br /> License: 3D Slicer Contribution and Software License Agreement<br /> <br /> Acknowledgements: The SlicerDMRI developers gratefully acknowledge funding for this project provided by NIH NCI ITCR U01CA199459 (Open Source Diffusion MRI Technology For Brain Cancer Research), NIH P41EB015898 (National Center for Image-Guided Therapy) and NIH P41EB015902 (Neuroimaging Analysis Center), as well as the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.<br /> <br /> Contact: slicer-users@bwh.harvard.edu<br /> <br /> Website: http://slicerdmri.github.io/<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Fiducials seeding 1.png| Tractography Fiducial Seeding<br /> |Image:Fiducials seeding 2.png| Tractography Fiducial Seeding<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> This module is used for interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Create DTI fiber tracts starting from a list of fiducial points. Tracks created from a small number of fiducial points are are highly interactive and can be used in exploration mode while moving fiducials with the help of transformations. This mode can be useful in pre-op planning or for tracking tools during the surgery.<br /> * Use Case 2: Create DTI fiber tracts starting from vertices of a model. This mode can be useful for exploring tracts around a tumor model.<br /> * Use Case 2: Create DTI fiber tracts starting from a label map volume. Tracks created from a label map ROI can be used in interactive mode while modifying the label map using Editor module.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module:<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> * Slicer4 Neurosurgical Planning Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#Slicer4_Neurosurgical_Planning_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> ** Presets: select an Slicer4 or Slicer3 parameters setting for the module.<br /> * IO panel:<br /> ** Input DTI volume: select an existing tensor volume.<br /> ** Input FiducialList, Model, or Label Map: select an existing fiducial list, or a model, or a label map volume to be used as seeds for tracking.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> ** Enable Seeding Tracts: A toggle to enable/disable seeding. Disable if you want to change multiple parameters without re-running module at each step.<br /> * Seeding Placement Option panel (only shown when fiducials or a model is selected):<br /> ** Fiducail Region Size: The size of the box around each fiducial used for seeding (mm).<br /> ** Fiducail Seeding Step Size: Step between the seeding samples in the box (mm).<br /> ** Seed Selected Fiducials: Flag indicating whether to use only selected fiducials for seeding or all of them.<br /> ** Maximum Number of Seeds: Used with models to specify the limit of the number of vertices to be used for seeding.<br /> | align=&quot;right&quot; |<br /> |-<br /> |<br /> * Label Map Options panel:<br /> ** Use Index Space: if selected seed at IJK voxel grid<br /> ** Seed Spacing: spacing in between seed points within in the labelmap (in mm), only matters if use Use Index Space is off.<br /> ** Random Grid: use random placement.<br /> ** Linear Measure Start Threshold: place seeds only if linear measure (cl) is above this threshold.<br /> ** ROI Labels: a comma separated list of label to start seeding<br /> ** Write Fibers to Disk: option to save the results to disk for further analysis.<br /> ** Output Directory: path where the results are saved.<br /> ** File Prefix Name: name that would be used for each output bundle.<br /> | align=&quot;right&quot; |<br /> |}<br /> <br /> * Tractography Seeding Parameters panel:<br /> ** Minimum Path Length: Select only tracts that are longer than this value (mm).<br /> ** Maximum Path Length: Select only tracts that are shorter than this value (mm).<br /> ** Stopping Criteria: Select Linear Measure or FA to be used as stopping criteria.<br /> ** Stopping Value: Select Linear Measure or FA stopping value, tracking will stop when the value drops below this one.<br /> ** Stopping Track Curvature: Select the curvature stopping value in degree per mm, tracking will stop when the radius of curvature is smaller than this one.<br /> <br /> * Enabling Options panel:<br /> ** Create Tracts Initially As: Select Tubes or Lines<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> * UKF Tractography<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> * Interactive Diffusion Tensor Tractography Visualization for Neurosurgical Planning: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3112275/<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> * https://github.com/SlicerDMRI<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Fiducials_seeding_2.png&diff=46436 2016-07-06T16:49:46Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Fiducials_seeding_1.png&diff=46435 2016-07-06T16:49:26Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/FiberBundleToLabelMap&diff=46427 2016-07-06T15:57:11Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Steve Pieper (SPL, Isomics, Inc.) &lt;br&gt;<br /> &lt;email&gt;pieper@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:CC label.png| Corpus callosum (CC) tracts<br /> |Image:CC tract label.png| Label map from the corpus callosum (CC) tracts.<br /> }}<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> <br /> [[File:FiberBundleToLabelMap-Screen Shot 2013-07-08 at 11.27.12 AM.png|thumb|300px|Example of the label map generated from a set of fibers]]<br /> <br /> This module sets the specified label value in the label map at every vertex in each of the fibers in a bundle. Note that this assumes that the fibers vertices are closely spaced relative to the voxels (i.e. the Integration Step Length in the [[Documentation/{{documentation/version}}/Modules/TractographyLabelMapSeeding|seeding module]] is smaller than the voxel size or some voxels could be missed.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> <br /> * Fiber Bundle<br /> ** Pick a fiber bundle to rasterize<br /> * Target Label Map<br /> ** The fibers will be painted into this label map. Note that this will add to and overwrite existing data, but does not clear the label map to zero first.<br /> * Label Value<br /> ** Numerical value to be written into the label map.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> [[Documentation/{{documentation/version}}/Modules/ModelToLabelMap|Model To Label Map]]<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> N/A<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> This is a python scripted module.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:CC_tract_label.png&diff=46426 2016-07-06T15:54:00Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:CC_label.png&diff=46425 2016-07-06T15:53:22Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyInteractiveSeeding&diff=46421 2016-07-06T15:41:26Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Alex Yarmarkovich, Isomics, SPL&lt;br&gt;<br /> Contributor1: Demian Wassermann, SPL&lt;br&gt;<br /> Contributor2: Steve Pieper, Isomics, SPL&lt;br&gt;<br /> Contact: Alex Yarmarkovich, &lt;email&gt;alexy@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Fiducial Seeding.png| Tractography Fiducial Seeding<br /> |Image:LabelMap Seeding.png| Tractography Label Map Seeding<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> This module is used for interactive seeding of DTI fiber tracts starting from a list of fiducial points or vertices of a model, or a label map volume.[[documentation/{{documentation/version}}/Modules/{{documentation/modulename}}#References|references]] giving more details on the algorithm.<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Create DTI fiber tracts starting from a list of fiducial points. Tracks created from a small number of fiducial points are are highly interactive and can be used in exploration mode while moving fiducials with the help of transformations. This mode can be useful in pre-op planning or for tracking tools during the surgery.<br /> * Use Case 2: Create DTI fiber tracts starting from vertices of a model. This mode can be useful for exploring tracts around a tumor model.<br /> * Use Case 2: Create DTI fiber tracts starting from a label map volume. Tracks created from a label map ROI can be used in interactive mode while modifying the label map using Editor module.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module:<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> A list of all the panels in the interface, their features, what they mean, and how to use them. For instance:<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> ** Presets: select an Slicer4 or Slicer3 parameters setting for the module.<br /> * IO panel:<br /> ** Input DTI volume: select an existing tensor volume.<br /> ** Input FiducialList, Model, or Label Map: select an existing fiducial list, or a model, or a label map volume to be used as seeds for tracking.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> ** Enable Seeding Tracts: A toggle to enable/disable seeding. Disable if you want to change multiple parameters without re-running module at each step.<br /> * Seeding Placement Option panel (only shown when fiducials or a model is selected):<br /> ** Fiducail Region Size: The size of the box around each fiducial used for seeding (mm).<br /> ** Fiducail Seeding Step Size: Step between the seeding samples in the box (mm).<br /> ** Seed Selected Fiducials: Flag indicating whether to use only selected fiducials for seeding or all of them.<br /> ** Maximum Number of Seeds: Used with models to specify the limit of the number of vertices to be used for seeding.<br /> | align=&quot;right&quot; |<br /> |-<br /> |<br /> * Label Map Options panel:<br /> ** Use Index Space: if selected seed at IJK voxel grid<br /> ** Seed Spacing: spacing in between seed points within in the labelmap (in mm), only matters if use Use Index Space is off.<br /> ** Random Grid: use random placement.<br /> ** Linear Measure Start Threshold: place seeds only if linear measure (cl) is above this threshold.<br /> ** ROI Labels: a comma separated list of label to start seeding<br /> ** Write Fibers to Disk: option to save the results to disk for further analysis.<br /> ** Output Directory: path where the results are saved.<br /> ** File Prefix Name: name that would be used for each output bundle.<br /> | align=&quot;right&quot; |<br /> |}<br /> <br /> * Tractography Seeding Parameters panel:<br /> ** Minimum Path Length: Select only tracts that are longer than this value (mm).<br /> ** Maximum Path Length: Select only tracts that are shorter than this value (mm).<br /> ** Stopping Criteria: Select Linear Measure or FA to be used as stopping criteria.<br /> ** Stopping Value: Select Linear Measure or FA stopping value, tracking will stop when the value drops below this one.<br /> ** Stopping Track Curvature: Select the curvature stopping value in degree per mm, tracking will stop when the radius of curvature is smaller than this one.<br /> <br /> * Enabling Options panel:<br /> ** Create Tracts Initially As: Select Tubes or Lines<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:LabelMap_Seeding.png&diff=46420 2016-07-06T15:40:17Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Fiducial_Seeding.png&diff=46417 2016-07-06T15:36:32Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyDisplay&diff=46342 2016-06-29T21:10:54Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Isaiah Norton, Goldby Lab&lt;br&gt;<br /> Author: Demian Wassermann, SPL&lt;br&gt;<br /> Contributor1: Steve Pieper, Isomics Inc.&lt;br&gt;<br /> Contributor2: Alex YarmarKovich, Isomics Inc.&lt;br&gt;<br /> Contact: Demian Wassermann, &lt;email&gt;demian@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Tracts display.png|Tractography displayed in line, tube and glyphs<br /> |Image:Tracts on slices.png|Tractography displayed on slices <br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> Allows the user to manipulate several different characteristics of the traced white matter tracts. Examples are: change of color; display of the fractional anisotropy along the tract; display of the tracts as tubes or lines; interactive selection of the tracts; and cropping.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Change the scalar quantity displayed along the tract, like Fractional Anisotropy or Color By Orientation<br /> * Use Case 2: Display the tracts as lines or tubes<br /> * Use Case 3: Interactive selection or cropping of a certain bundle.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> [[image:2011-11-12-CroppingWholeBrainTractography.png|400px]]<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * <br /> ** Line: Display the tracts as lines<br /> ** Tube: Display the tracts as tubes<br /> *** Slice Intersection: Show the tracts in the 2D view<br /> ** Glyph: Display glyphs representing the diffusion tensors along the tracts<br /> ** Percentage of Fibers Shown: Select how many of the total tracts in the bundle are shown. Useful for performance.<br /> * Fiber Bundle Selection: Perform interactive selection and cropping of the tracts<br /> ** ROI for Fiber Selection: Select a ROI to use as an interactor with the tracts<br /> ** Disable/Positive/Negative ROI: Set the selection mode to '''Select everything'''; '''Select the tracts traversing the ROI'''; '''Select the tracts not traversing the ROI'''<br /> ** Create Bundle From ROI: Create a new fiber bundle which contains only the selected ones<br /> ** Update Bundle From ROI: Update the current fiber bundle leaving only the selected ones<br /> * Advance Display: For the lines, tubes and glyphs<br /> ** Visibility: Toggle the visibility of the bundle<br /> ** Opacity: Change the transparency level of the bundle<br /> ** Color By: Change the way the bundle is colored; either by a tensor-derived property or by a group id<br /> ** Solid Color: Color the bundle of a single solid color<br /> &lt;!--<br /> | align=&quot;right&quot; |<br /> [[Image:screenshotBlankNotOptional.png|thumb|280px|Name of panel 1]]<br /> | align=&quot;right&quot; |<br /> [[Image:screenshotBlankNotOptional.png|thumb|280px|Name of panel 2]]<br /> |}<br /> --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Tracts_display.png&diff=46341 2016-06-29T21:07:43Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Tracts_on_slices.png&diff=46340 2016-06-29T21:06:22Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/TractographyLabelMapSeeding&diff=46338 2016-06-29T20:52:29Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Demian Wassermann, SPL, LMI, PNL, Brigham and Women's Hospital, Harvard Medical School&lt;br&gt;<br /> Contact: Demian Wassermann, &lt;email&gt;demian@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> Contributor1: Raúl San José-Estepar&lt;br&gt;<br /> Contributor2: Lauren O'Donnel&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Seeding map.png|Seeding label map<br /> |Image:Seeding_tracts.png|Output tractography<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1:Using a label map trace all the fibers emanating from it.<br /> * Use Case 2:Using a brain mask, perform a full brain tractography<br /> <br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> * Slicer4 Diffusion Tensor Imaging Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> [http://wiki.slicer.org/slicerWiki/index.php/Documentation/4.0/Modules/TractographyFiducialSeeding Tractography Fiducial Seeding]<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Seeding_tracts.png&diff=46337 2016-06-29T20:51:30Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Seeding_map.png&diff=46336 2016-06-29T20:46:55Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/FiberTractMeasurements&diff=46333 2016-06-29T20:26:55Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> {{documentation/{{documentation/version}}/module-acknowledgements}}<br /> Contact: &lt;email&gt;slicer-users@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> Website: http://slicerdmri.github.io/<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Multple tracts.png|Multiple tracts from Corpus callosum (CC)<br /> |Image:Csv measurements.png|Tensor measurements of the CC tracts<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Compute measurements from all tractography files in a directory.<br /> * Use Case 2: Compute measurements using a fiber tract hierarchy to select and combine tractography files in a directory (for example to define corpus callosum subregions).<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> * Slicer4 Fiber Bundle Selection and Scalar Measurements Tutorial :https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#Fiber_Bundle_Selection_and_Scalar_Measurements<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * DWIToDTIEstimation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> * https://github.com/SlicerDMRI<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Csv_measurements.png&diff=46330 2016-06-29T20:23:03Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Multple_tracts.png&diff=46332 2016-06-29T20:23:03Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/FiberBundleLabelSelect&diff=46323 2016-06-29T20:10:17Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> <br /> {{documentation/{{documentation/version}}/module-acknowledgements}}<br /> Contact: &lt;email&gt;slicer-users@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> Website: http://slicerdmri.github.io/<br /> <br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Wholebraintractography.png|Whole brain tractography<br /> |Image:CCSelectedTracts.png|Corpus callosum (CC) tract selection<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Filter out a subset of DTI fiber tracts which are passing through selected region(s) defined in the label map volume.<br /> * Use Case 2: Filter out a subset of DTI fiber tracts which are NOT passing through selected region(s) defined in the label map volume.<br /> * Use Case 3: A combination of Case 1 and Case 2.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> * Slicer4 Fiber Bundle Selection and Scalar Measurements Tutorial: https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#Fiber_Bundle_Selection_and_Scalar_Measurements<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> REMOVE THIS FROM BELOW WHEN AUTO GENERATED:<br /> A list of all the panels in the interface, their features, what they mean, and how to use them. For instance:<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> * IO panel:<br /> ** Input Label Map: select an existing label map volume.<br /> ** Input FiberBundle: Select the fibers that you want to filter.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> * Label Regions Definition panel :<br /> ** Labels to include: A comma separated list of label values to include in the output fiber bundles set.<br /> ** Combine Include Labels: OR or AND logical operation to combine individual label values in the above list.<br /> ** Labels to exclude: A comma separated list of label values to exclude from the output fiber bundles set.<br /> ** Combine Exclude Labels: OR or AND logical operation to combine individual label values in the above list.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> * http://slicerdmri.github.io/<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> * https://github.com/SlicerDMRI<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Wholebraintractography.png&diff=46322 2016-06-29T20:09:10Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:CCSelectedTracts.png&diff=46317 2016-06-29T19:57:23Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/FiberBundleLabelSelect&diff=46306 2016-06-29T19:37:41Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Alex Yarmarkovich, Isomics, SPL&lt;br&gt;<br /> Contributor1: Demian Wassermann, SPL&lt;br&gt;<br /> Contact: Alex Yarmarkovich, &lt;email&gt;alexy@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Fiber select.PNG|Tract selection<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> This module is used for selecting a subset of DTI fiber tracts including or excluding certain fibers passing through a selected set of labels in the label map volume.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Filter out a subset of DTI fiber tracts which are passing through selected region(s) defined in the label map volume.<br /> * Use Case 2: Filter out a subset of DTI fiber tracts which are NOT passing through selected region(s) defined in the label map volume.<br /> * Use Case 3: A combination of Case 1 and Case 2.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> [https://www.slicer.org/slicerWiki/index.php/Documentation/4.5/Training#Fiber_Bundle_Selection_and_Scalar_Measurements|Fiber Bundle Selection and Scalar Measurements]<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> A list of all the panels in the interface, their features, what they mean, and how to use them. For instance:<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> * IO panel:<br /> ** Input Label Map: select an existing label map volume.<br /> ** Input FiberBundle: Select the fibers that you want to filter.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> * Label Regions Definition panel :<br /> ** Labels to include: A comma separated list of label values to include in the output fiber bundles set.<br /> ** Combine Include Labels: OR or AND logical operation to combine individual label values in the above list.<br /> ** Labels to exclude: A comma separated list of label values to exclude from the output fiber bundles set.<br /> ** Combine Exclude Labels: OR or AND logical operation to combine individual label values in the above list.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/FiberBundleLabelSelect&diff=46305 2016-06-29T19:33:14Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Alex Yarmarkovich, Isomics, SPL&lt;br&gt;<br /> Contributor1: Demian Wassermann, SPL&lt;br&gt;<br /> Contact: Alex Yarmarkovich, &lt;email&gt;alexy@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:Fiber select.PNG|Tract selection<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> This module is used for selecting a subset of DTI fiber tracts including or excluding certain fibers passing through a selected set of labels in the label map volume.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1: Filter out a subset of DTI fiber tracts which are passing through selected region(s) defined in the label map volume.<br /> * Use Case 2: Filter out a subset of DTI fiber tracts which are NOT passing through selected region(s) defined in the label map volume.<br /> * Use Case 3: A combination of Case 1 and Case 2.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> [http://wiki.slicer.org/slicerWiki/index.php/Documentation/4.0/Training#Slicer4_Diffusion_Tensor_Imaging_Tutorial Slicer 4 Diffusion Tensor Tutorial]<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> <br /> A list of all the panels in the interface, their features, what they mean, and how to use them. For instance:<br /> <br /> {|style=&quot;width: 100%&quot;<br /> |<br /> * Parameters panel:<br /> ** Parameters: select an existing setting for the module or create a new one.<br /> * IO panel:<br /> ** Input Label Map: select an existing label map volume.<br /> ** Input FiberBundle: Select the fibers that you want to filter.<br /> ** Output FiberBundle: Select the bundle that you want to create or modify from a list.<br /> * Label Regions Definition panel :<br /> ** Labels to include: A comma separated list of label values to include in the output fiber bundles set.<br /> ** Combine Include Labels: OR or AND logical operation to combine individual label values in the above list.<br /> ** Labels to exclude: A comma separated list of label values to exclude from the output fiber bundles set.<br /> ** Combine Exclude Labels: OR or AND logical operation to combine individual label values in the above list.<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Tractography Label Map Seeding<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:Fiber_select.PNG&diff=46303 2016-06-29T19:29:35Z

<p>Zhangfanmark: Zhangfanmark uploaded a new version of File:Fiber select.PNG</p> <hr /> <div>FiberBundleLableSelect module</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking&diff=46300 2016-06-29T19:24:21Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Demian Wassermann, SPL, LMI, PNL, Brigham and Women's Hospital, Harvard Medical School&lt;br&gt;<br /> Contact: Demian Wassermann, &lt;email&gt;demian@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:DWIToDTIEstimation screenshot DWI.png|DWI<br /> |Image:DiffusionWeightedVolumeMasking Brain mask.png|Brain mask<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1:<br /> * Use Case 2:<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Point to other modules that have similar functionality<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:DiffusionWeightedVolumeMasking_Brain_mask.png&diff=46298 2016-06-29T19:22:16Z

<p>Zhangfanmark: </p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking&diff=46296 2016-06-29T19:14:42Z

<p>Zhangfanmark: </p> <hr /> <div>&lt;noinclude&gt;{{documentation/versioncheck}}&lt;/noinclude&gt;<br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-header}}<br /> &lt;!-- ---------------------------- --&gt;<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}<br /> {{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].&lt;br&gt;<br /> Author: Demian Wassermann, SPL, LMI, PNL, Brigham and Women's Hospital, Harvard Medical School&lt;br&gt;<br /> Contact: Demian Wassermann, &lt;email&gt;demian@bwh.harvard.edu&lt;/email&gt;&lt;br&gt;<br /> {{documentation/{{documentation/version}}/module-introduction-row}}<br /> {{documentation/{{documentation/version}}/module-introduction-logo-gallery<br /> |Image:SlicerDMRIScreenshot.jpg|SlicerDMRI<br /> |Image:Logo-splnew.jpg|Surgical Planning Laboratory<br /> |Image:NAC-logo.png|NAC<br /> |Image:DiffusionTensorScalarMeasurements screenshot Trace.png|Diffusion Tensor Trace<br /> |Image:DiffusionTensorScalarMeasurements screenshot FA.png|Diffusion Tensor FA<br /> }}<br /> {{documentation/{{documentation/version}}/module-introduction-end}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Module Description}}<br /> {{documentation/{{documentation/version}}/module-description}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Use Cases}}<br /> Most frequently used for these scenarios:<br /> <br /> * Use Case 1:<br /> * Use Case 2:<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Tutorials}}<br /> Links to tutorials that use this module<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Panels and their use}}<br /> {{documentation/{{documentation/version}}/module-parametersdescription}}<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Similar Modules}}<br /> * Point to other modules that have similar functionality<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|References}}<br /> Publications related to this module go here. Links to pdfs would be useful.<br /> For extensions: link to the source code repository and additional documentation<br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-section|Information for Developers}}<br /> {{documentation/{{documentation/version}}/module-developerinfo}}<br /> <br /> <br /> &lt;!-- ---------------------------- --&gt;<br /> {{documentation/{{documentation/version}}/module-footer}}<br /> &lt;!-- ---------------------------- --&gt;</div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:DWIToDTIEstimation_screenshot_B0.png&diff=46295 2016-06-29T19:11:01Z

<p>Zhangfanmark: Zhangfanmark uploaded a new version of File:DWIToDTIEstimation screenshot B0.png</p> <hr /> <div></div>

Zhangfanmark https://www.slicer.org/w/index.php?title=File:DWIToDTIEstimation_screenshot_DTI.png&diff=46294 2016-06-29T19:10:50Z

<p>Zhangfanmark: Zhangfanmark uploaded a new version of File:DWIToDTIEstimation screenshot DTI.png</p> <hr /> <div></div>

Zhangfanmark