Difference between revisions of "Documentation/Nightly/Modules"

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(→‎Quantification: Change quantification module is now available through ChangeTracker extension, not in the Slicer trunk.)
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=Modules by Category=
 
==Core Modules==
 
  
{{documentation/{{documentation/version}}/Developers/random-image}}
+
{{:Documentation/{{documentation/version}}/ModuleExtensionListing}}
 
 
*[[Documentation/{{documentation/version}}/Modules/Annotations|Annotations]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/Colors|Colors]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/Data|Data]] (Julien Finet)
 
*[[Documentation/{{documentation/version}}/Modules/DICOM|DICOM]] (Steve Pieper)
 
*[[Documentation/{{documentation/version}}/Modules/Editor|Editor]] (Steve Pieper)
 
**[[Documentation/{{documentation/version}}/Modules/Editor/WatershedFromMarkers|WatershedFromMarkers]] (Bradley Lowekamp) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/Markups|Markups]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/Models|Models]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/SceneViews|SceneViews]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/Transforms|Transforms]] (Alex Yarmarkovich)
 
*[[Documentation/{{documentation/version}}/Modules/ViewControllers|View Controllers]] (Jim Miller)
 
*[[Documentation/{{documentation/version}}/Modules/Volumes|Volumes]] (Steve Pieper)
 
*[[Documentation/{{documentation/version}}/Modules/VolumeRendering|Volume Rendering]] (Julien Finet)
 
*[[Documentation/{{documentation/version}}/Modules/SlicerWelcome|Welcome to Slicer]] (Wendy Plesniak)
 
 
 
==Wizards==
 
 
 
==Informatics==
 
*[[Documentation/{{documentation/version}}/Modules/DataStore|Data Store]] (Charles Marion)
 
*[[Documentation/{{documentation/version}}/Modules/SampleData|Sample Data]] (Steve Pieper)
 
 
 
==Registration==
 
*[[:Category:Documentation/{{documentation/version}}/Modules/Registration|Introduction to Registration]] (Dominik Meier)
 
*[[Documentation/{{documentation/version}}/Modules/BRAINSFit|General Brainsfit Registration]] (Hans Johnson)
 
*[[Documentation/{{documentation/version}}/Modules/BRAINSResample|Resample Image (BRAINS)]] (Hans Johnson)
 
*Specialized
 
**[[Documentation/{{documentation/version}}/Modules/ACPCTransform|ACPC Transform]] (Nicole Aucoin)
 
**[[Documentation/{{documentation/version}}/Modules/BRAINSDemonWarp|Demon Registration (BRAINS)]] (Hans Johnson)
 
**[[Documentation/{{documentation/version}}/Modules/FiducialRegistration|Fiducial Registration]] (Stephen Aylward) {{wip}}
 
**Vector Demon Registration (Hans Johnson)
 
**[[Documentation/{{documentation/version}}/Modules/Reformat|Reformat]] (Michael Jeulin-Lagarrigue)
 
**[[Documentation/{{documentation/version}}/Modules/SegmentationAidedRegistration|Segmentation Aided Registration]] (Yi Gao) {{wip}}
 
 
 
==Segmentation==
 
*[[Documentation/{{documentation/version}}/Modules/EMSegment Easy|EMSegment Easy (no atlas)]] (Kilian Pohl)
 
*[[Documentation/{{documentation/version}}/Modules/EMSegmenter|EMSegment (with atlas)]] (Kilian Pohl)
 
*[[Documentation/{{documentation/version}}/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]] (Jim Miller, Harini Veeraraghavan)
 
*[[Documentation/{{documentation/version}}/Modules/KSliceInteractiveSegmenter|KSlice Interactive Segmenter]] (Ivan Kolesov, Peter Karasev, Patricio Vela, Allen Tannenbaum, Karl Fritscher, Steve Pieper )
 
*[[Documentation/{{documentation/version}}/Modules/CarreraSliceInteractiveSegmenter|CarreraSlice Interactive Segmenter]] (Ivan Kolesov, LiangJia Zhu, Yi Gao, Peter Karasev, Patricio Vela, Allen Tannenbaum, Karl Fritscher, Steve Pieper )
 
*[[Documentation/{{documentation/version}}/Modules/Editor|Editor]] (Steve Pieper)
 
*Specialized
 
**[[Documentation/{{documentation/version}}/Modules/EMSegment Command-line | EMSegment Command-line]] (Kilian Pohl)
 
**[[Documentation/{{documentation/version}}/Modules/ForegroundMasking|Foreground Masking (BRAINS)]] (Hans Johnson)
 
**[[Documentation/{{documentation/version}}/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]] (Yi Gao)
 
**[[Documentation/{{documentation/version}}/Modules/LAScarSegmenter|Left Atrial Scar Segmenter]] (Liangjia Zhu)
 
**[[Documentation/{{documentation/version}}/Modules/LASegmenter|Left Atrium Segmenter]] (Liangjia Zhu)
 
 
 
==Quantification==
 
*[[Documentation/{{documentation/version}}/Modules/DataProbe|Data Probe]] (Steve Pieper)
 
*[[Documentation/{{documentation/version}}/Modules/LabelStatistics|Label Statistics]] (Steve Pieper)
 
*[[Documentation/{{documentation/version}}/Modules/PETStandardUptakeValueComputation|PET Standard Uptake Value Computation]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/SNR Measurement|SNR Measurement]] (Babak Matinfar)
 
 
 
==Diffusion==
 
*DWI to Full Brain Tractography (Demian Wasserman) {{wip}}
 
*Denoising
 
**[[Documentation/{{documentation/version}}/Modules/DWIJointRicianLMMSEFilter|DWI Joint Rician LMMSE Image Filter]] (Demian Wasserman) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/DWIRicianLMMSEFilter|DWI Rician LMMSE Filter]] (Demian Wasserman) {{wip}}
 
*Tractography
 
**[[Documentation/{{documentation/version}}/Modules/TractographyDisplay|Tractography Display]] (Demian Wasserman) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/TractographyFiducialSeeding|Tractography Interactive Seeding]] (Alex Yarmarkovich)
 
**[[Documentation/{{documentation/version}}/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]] (Demian Wasserman) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/UKFTractography|UKF Tractography]]
 
*Utilities
 
**[[Documentation/{{documentation/version}}/Modules/DWIToDTIEstimation|DWI To DTI Estimation]] (Demian Wasserman) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]] (Demian Wasserman)
 
**[[Documentation/{{documentation/version}}/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]] (Demian Wasserman) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/ResampleDTIVolume|Resample DTI Volume]] (Demian Wasserman) {{wip}}
 
*Data Conversion
 
**[[Documentation/{{documentation/version}}/Modules/DTIImport|DTIImport]] {{wip}} (Sonia Pujol)
 
**[[Documentation/{{documentation/version}}/Modules/DTIExport|DTIExport]] {{wip}} (Sonia Pujol)
 
**[[Documentation/{{documentation/version}}/Modules/FiberBundleToLabelMap|Fiber Bundle to Label Map]] (Steve Pieper)
 
 
 
==IGT==
 
*[[Documentation/{{documentation/version}}/Modules/OpenIGTLinkIF| OpenIGTLink IF]] (Junichi Tokuda) {{wip}}
 
 
 
==Filtering==
 
*[[Documentation/{{documentation/version}}/Modules/N4ITKBiasFieldCorrection | N4ITK Bias Field Correction]] (Andrey Fedorov)
 
*[[Documentation/{{documentation/version}}/Modules/CheckerBoardFilter|CheckerBoard Filter]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/ExtractSkeleton|Extract Skeleton]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/HistogramMatching|Histogram Matching]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/ImageLabelCombine|Image Label Combine]] (Alex Yarmarkovich)
 
*[[Documentation/{{documentation/version}}/Modules/ResampleScalarVectorDWIVolume|Resample Scalar/Vector/DWI Volume]] (Francois Budin) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/ThresholdScalarVolume|Threshold Scalar Volume]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/SimpleFilters|Simple Filters]] (Bradley Lowekamp) {{wip}}
 
*Arithmetic
 
**[[Documentation/{{documentation/version}}/Modules/AddScalarVolumes|Add Scalar Volumes]] (Jim Miller) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/CastScalarVolume| Cast Scalar Volume]] (Nicole Aucoin)
 
**[[Documentation/{{documentation/version}}/Modules/MaskScalarVolume| Mask Scalar Volume]] (Nicole Aucoin)
 
**[[Documentation/{{documentation/version}}/Modules/MultiplyScalarVolumes| Multiply Scalar Volumes]] (Jim Miller) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/SubtractScalarVolumes| Subtract Scalar Volumes]] (Jim Miller) {{wip}}
 
*Denoising
 
**[[Documentation/{{documentation/version}}/Modules/GradientAnisotropicDiffusion |Gradient Anisotropic Diffusion]] (Jim Miller) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]] (Jim Miller) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]] (Stephen Aylward) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/MedianImageFilter|Median Image Filter]] (Jim Miller) {{wip}}
 
*Morphology
 
**[[Documentation/{{documentation/version}}/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]] (Jim Miller)
 
**[[Documentation/{{documentation/version}}/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]] (Jim Miller) {{wip}}
 
 
 
==Surface Models==
 
*[[Documentation/{{documentation/version}}/Modules/GrayscaleModelMaker| Grayscale Model Maker]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/LabelMapSmoothing|Label Map Smoothing]] {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/MergeModels| Merge Models]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/ModelMaker| Model Maker]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/ModelToLabelMap| Model To LabelMap]] (Nicole Aucoin)
 
*[[Documentation/{{documentation/version}}/Modules/ProbeVolumeWithModel| Probe Volume With Model]] (Lauren O'Donnell) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/SurfaceToolbox| SurfaceToolbox]] (Luca Antiga)
 
 
 
==Converters==
 
*[[Documentation/{{documentation/version}}/Modules/CreateDICOMSeries|Create DICOM Series]] (Jim Miller) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/Crop Volume|Crop Volume]] (Andrey Fedorov)
 
*[[Documentation/{{documentation/version}}/Modules/DicomToNrrdConverter|Dicom to Nrrd Converter]] (Jim Miller)
 
*[[Documentation/{{documentation/version}}/Modules/OrientScalarVolume| Orient Scalar Volume]] (Jim Miller)
 
*[[Documentation/{{documentation/version}}/Modules/VectorToScalarVolume| Vector to Scalar Volume]] (Steve Pieper)
 
{{wip}}
 
 
 
==Endoscopy==
 
*[[Documentation/{{documentation/version}}/Modules/Endoscopy|Endoscopy]] (Steve Pieper)
 
 
 
=={{wip}} Work in Progress {{wip}}==
 
* MultiVolume Support
 
**[[Documentation/{{documentation/version}}/Modules/MultiVolumeImporter|MultiVolume Importer]] (Andrey Fedorov)
 
**[[Documentation/{{documentation/version}}/Modules/MultiVolumeExplorer|MultiVolume Explorer]] (Andrey Fedorov)
 
 
 
==Developer Tools==
 
*[[Documentation/{{documentation/version}}/Modules/Cameras|Cameras]] (Julien Finet) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/EventBroker|Event Broker]] (Julien Finet) {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/ExecutionModelTour |Execution Model Tour]] (JC Fillion-Robin)  {{wip}}
 
*[[Documentation/{{documentation/version}}/Modules/YOURMODULENAME|Module Template]] (JC Fillion-Robin)
 
*Performance Tests
 
*Tractography
 
 
 
==Legacy==
 
*Converters
 
**[[Documentation/{{documentation/version}}/Modules/BSplineToDeformationField|BSpline To Deformation Field]]
 
*Diffusion
 
**Denoising
 
***[[Documentation/{{documentation/version}}/Modules/DWIUnbiasedNonLocalMeansFilter|DWI Unbiased Non Local Means Filter]]
 
*Filtering
 
**[[Documentation/{{documentation/version}}/Modules/MRIBiasFieldCorrection|MRI Bias Field Correction]] (Sylvain Jaume) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]] (Bill Lorensen) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/ResampleScalarVolume|Resample Scalar Volume]] (Jim Miller) {{wip}}
 
*Registration
 
**[[Documentation/{{documentation/version}}/Modules/RigidRegistration|Rigid Registration]] (Jim Miller)  {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/AffineRegistration|Affine Registration]] (Daniel Blezek) {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/BSplineDeformableRegistration|BSpline Deformable Registration]] {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/ExpertAutomatedRegistration|Expert Automated Registration]] {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/LinearRegistration|Linear Registration]] {{wip}}
 
**[[Documentation/{{documentation/version}}/Modules/MultiResolutionAffineRegistration|MultiResolution Affine Registration]] (Casey Goodlett){{wip}}
 
<!--
 
**[[Documentation/{{documentation/version}}/Modules/TestGridTransformRegistration|Test Grid Transform Registration]] {{wip}}
 
-->
 
*Segmentation
 
**[[Documentation/{{documentation/version}}/Modules/OtsuThresholdSegmentation|Otsu Threshold Segmentation]] (Bill Lorensen) {{wip}}
 

Latest revision as of 14:32, 29 October 2015

Home < Documentation < Nightly < Modules

For the stable Slicer documentation, visit the 4.10 page.


Modules by category

46 categories:

Astronomy

Cardiac

Cardiac MRI Toolkit

Chest Imaging Platform

Toolkit

Particles

Processing

Quantification

Registration

Segmentation

Utils

CIP

Converters

Developer Tools

DICOM Plugins

  • DICOMParametricMapPlugin
  • DicomUltrasoundPlugin
  • DICOMSegmentationPlugin
  • DICOMSlicerDataBundlePlugin
  • DICOMTID1500Plugin
  • DICOMPETSUVPlugin
  • DICOMScalarVolumePlugin
  • DICOMDiffusionVolumePlugin
  • DICOMLongitudinalPETCTPlugin
  • DicomSroImportPlugin
  • DICOMRWVMPlugin
  • DicomRtImportExportPlugin
  • MultiVolumeImporterPlugin

Editor Extensions

Matlab

Segment Editor Extensions

Utils

Diffusion

Diffusion Data Conversion

  • DWIConvert (cli, built-in)

Diffusion Tensor Images

Diffusion Weighted Images

  • BRAINSDWICleanup (cli, built-in)

Import and Export

Process

Quantify

Tractography

Region-based

Utilities

Editor Effects

EditorEffect

Endoscopy

Examples

Exporter

Filter

  • IslandRemoval (cli, built-in)

Filtering

Arithmetic

Denoising

Morphology

IGT

Informatics

Converters

Legacy

Converters

Filtering

Registration

Work in Progress

Diffusion Tensor

Test
  • DiffusionTensorTest (cli, built-in)

Libraries

Machine Learning

Margin Calculator

Mesh Generation

MeshGeneration

Microscopy

MultiVolume Support

Pathology

Perk Tutor

Plastimatch

Registration

Utilities

Quantification

ChangeQuantification

Radiology

Radiotherapy

Registration

CMF Registration

Voxelbase Registration

Label Registration

Specialized

Segmentation

Specialized

Sequences

Slicelets

SlicerProstate

Surface Models

TestCases

  • SEGExporterSelfTest

Testing

  • CLI4Test
  • ThresholdThreadingTest
  • ScoliosisMonitoring (scripted, bundled in Scoliosis extension)
  • SlicerMRBSaveRestoreCheckPathsTest
  • CLIROITest (cli, built-in)
  • PerformanceTests
  • SlicerMRBMultipleSaveRestoreTest
  • SlicerMRBTest
  • SEGExporterSelfTest
  • SelfTests
  • SlicerMRBMultipleSaveRestoreLoopTest

IGT Tests

  • BreachWarningSelfTest
  • WatchdogSelfTest

SlicerRT Tests

TestCases

  • AtlasTests
  • AddStorableDataAfterSceneViewTest
  • test_tractography_display
  • SlicerTransformInteractionTest1
  • RSNAQuantTutorial
  • NeurosurgicalPlanningTutorialMarkupsSelfTest
  • ChangeTrackerSelfTest
  • FiducialLayoutSwitchBug1914
  • GraphCutSegmentSelfTest
  • SlicerBoundsTest
  • UtilTest
  • Charting (scripted, built-in)
  • CardiacAgatstonMeasures (scripted, bundled in CardiacAgatstonMeasures extension)
  • fiber_visibility_crash2438
  • RSNAVisTutorial
  • JRC2013Vis
  • AddManyMarkupsFiducialTest
  • CropVolumeSelfTest
  • SliceLinkLogic (scripted, built-in)
  • VolumeRenderingSceneClose (scripted, built-in)
  • slicerCloseCrashBug2590
  • CLIEventTest
  • NsgPlanTracto (scripted, bundled in SlicerDMRI extension)
  • MarkupsWidgetsSelfTest
  • TablesSelfTest
  • SlicerOrientationSelectorTest
  • MarkupsInViewsSelfTest
  • TwoCLIsInParallelTest
  • SubjectHierarchyCorePluginsSelfTest
  • SubjectHierarchyGenericSelfTest
  • ScenePerformance (scripted, built-in)
  • MarkupsInCompareViewersSelfTest
  • sceneImport2428
  • RSNA2012ProstateDemo
  • DTINotReproducibleIssue3977
  • TwoCLIsInARowTest
  • ColorsScalarBarSelfTest
  • BRAINSFitRigidRegistrationCrashIssue4139
  • Slicer4Minute (scripted, built-in)
  • ViewControllersSliceInterpolationBug1926

Ultrasound

Uncategorized

Utilities

  • ScreenCapture (scripted, built-in)
  • DataStore (loadable, built-in)
  • DICOMPatcher (scripted, built-in)
  • BRAINSStripRotation (cli, built-in)
  • EMSegmentTransformToNewFormat (cli, built-in)

BRAINS

  • BRAINSTransformConvert (cli, built-in)

Vascular Modeling Toolkit

Virtual Reality

Web System Tools

Wizards

XNATSlicer

Modules by name

367 modules: