Difference between revisions of "Documentation/Nightly"

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(Updated links to DICOM module (now on readthedocs))
Tag: 2017 source edit
(Use slicer-manual-base-url)
Tag: 2017 source edit
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<noinclude>{{documentation/versioncheck}}</noinclude>
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<noinclude>{{documentation/versioncheck}}
 +
</noinclude>
 
__NOTOC__
 
__NOTOC__
 +
 
{{documentation/versionlist}}
 
{{documentation/versionlist}}
  
{| border="0" align="center" width="100%" valign="top" cellspacing="7" cellpadding="2"
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{| border="0" align="center" width="100%" cellspacing="7" cellpadding="2" valign="top"
 
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! |
 
! |
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|-  
 
|-  
|valign="top"|
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| valign="top" |
 
----
 
----
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Where to start ?</span>
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Where to start ?</span>
 
----
 
----
* [https://slicer.readthedocs.io/en/latest/user_guide/getting_started.html Getting started]
 
: Quick overview about Slicer
 
  
* [[Documentation/{{documentation/version}}/Training|Training pages]]
+
* [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/getting_started.html Getting started]
: Information on how to use Slicer {{documentation/version}}
+
 
 +
:Quick overview about Slicer
 +
 
 +
*[[Documentation/{{documentation/version}}/Training|Training pages]]
 +
 
 +
:Information on how to use Slicer {{documentation/version}}
 +
 
 +
*[[Documentation/{{documentation/version}}/FAQ|FAQ]]
 +
 
 +
:Set of common questions/answers
  
* [[Documentation/{{documentation/version}}/FAQ|FAQ]]
+
*[https://discourse.slicer.org Discussion Forum]
: Set of common questions/answers
 
  
* [https://discourse.slicer.org Discussion Forum]
+
:The most effective way to get help from the community
: The most effective way to get help from the community
 
  
 
<!--
 
<!--
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<span style="color: #555555; font-size: 18px; font-weight: bold;">How to</span>
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">How to</span>
 
----
 
----
* [[Documentation/{{documentation/version}}/Report a problem|Report a problem]] / [[Documentation/{{documentation/version}}/Create_a_feature_request|Create a feature request]]{{new}}
+
 
 +
*[[Documentation/{{documentation/version}}/Report a problem|Report a problem]] / [[Documentation/{{documentation/version}}/Create_a_feature_request|Create a feature request]]{{new}}
 +
 
 
----
 
----
 
{{:{{FULLPAGENAME}}/SlicerApplication}}
 
{{:{{FULLPAGENAME}}/SlicerApplication}}
  
|bgcolor="#CCCCCC"|
+
| bgcolor="#CCCCCC" |
|valign="top"|
+
| valign="top" |
 
----
 
----
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Modules</span>
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Modules</span>
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| width="45%" |
 
| width="45%" |
 
 
[[Image:SlicerAnnotationsV2-Small.png|32px]] [[{{FULLPAGENAME}}/Modules/Annotations|Annotations]]
 
[[Image:SlicerAnnotationsV2-Small.png|32px]] [[{{FULLPAGENAME}}/Modules/Annotations|Annotations]]
<br/>
+
<br />
  
 
[[Image:DataIcon.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/data.html Data]
 
[[Image:DataIcon.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/data.html Data]
<br/>
+
<br />
  
 
[[Image:DataStoreIcon_128.png|32px]] [[{{FULLPAGENAME}}/Modules/DataStore|Data Store]]
 
[[Image:DataStoreIcon_128.png|32px]] [[{{FULLPAGENAME}}/Modules/DataStore|Data Store]]
<br/>
+
<br />
  
 
[[Image:DICOM.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicom.html DICOM]
 
[[Image:DICOM.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicom.html DICOM]
<br/>
+
<br />
  
 
[[Image:Editor.png|32px]] [[{{FULLPAGENAME}}/Modules/Editor|Editor]]
 
[[Image:Editor.png|32px]] [[{{FULLPAGENAME}}/Modules/Editor|Editor]]
<br/>
+
<br />
  
[[Image:Markups.png|32px]] [https://slicer.readthedocs.io/en/latest/user_guide/modules/markups.html Markups]
+
[[Image:Markups.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/markups.html Markups]
<br/>
+
<br />
  
 
[[Image:SlicerModels-Small.png|32px]] [[{{FULLPAGENAME}}/Modules/Models|Models]]
 
[[Image:SlicerModels-Small.png|32px]] [[{{FULLPAGENAME}}/Modules/Models|Models]]
<br/>
+
<br />
  
 
[[Image:SceneViews.png|32px]] [[{{FULLPAGENAME}}/Modules/SceneViews|Scene Views]]
 
[[Image:SceneViews.png|32px]] [[{{FULLPAGENAME}}/Modules/SceneViews|Scene Views]]
<br/>
+
<br />
  
 
[[Image:Segmentations.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/segmentations.html Segmentations]
 
[[Image:Segmentations.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/segmentations.html Segmentations]
<br/>
+
<br />
  
 
[[Image:SegmentEditor.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/segmenteditor.html Segment Editor]
 
[[Image:SegmentEditor.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/segmenteditor.html Segment Editor]
<br/>
+
<br />
  
 
[[Image:Transforms.png|32px]] [[{{FULLPAGENAME}}/Modules/Transforms|Transforms]]
 
[[Image:Transforms.png|32px]] [[{{FULLPAGENAME}}/Modules/Transforms|Transforms]]
<br/>
+
<br />
  
 
[[Image:ViewControllersIcon.png|32px]] [[{{FULLPAGENAME}}/Modules/ViewControllers|View Controllers]]
 
[[Image:ViewControllersIcon.png|32px]] [[{{FULLPAGENAME}}/Modules/ViewControllers|View Controllers]]
<br/>
+
<br />
  
[[Image:VolumeRendering.png|32px]] [https://slicer.readthedocs.io/en/latest/user_guide/modules/volumerendering.html Volume Rendering]
+
[[Image:VolumeRendering.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/volumerendering.html Volume Rendering]
<br/>
+
<br />
  
[[Image:SlicerVolume-Small.png|32px]] [https://slicer.readthedocs.io/en/latest/user_guide/modules/volumes.html Volumes]
+
[[Image:SlicerVolume-Small.png|32px]] [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/volumes.html Volumes]
<br/>
+
<br />
  
 
[[Image:Welcome.png|32px]] [[{{FULLPAGENAME}}/Modules/Welcome|Welcome to Slicer]]
 
[[Image:Welcome.png|32px]] [[{{FULLPAGENAME}}/Modules/Welcome|Welcome to Slicer]]
<br/>
+
<br />
  
| width="50%" |  
+
| width="50%" |
  
 
{{:{{FULLPAGENAME}}/ModuleExtensionListing/TOC}}
 
{{:{{FULLPAGENAME}}/ModuleExtensionListing/TOC}}
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{{note}} What are these categories ? See [[Documentation/{{documentation/version}}/Extensions/CatalogPolicies|here]]
 
{{note}} What are these categories ? See [[Documentation/{{documentation/version}}/Extensions/CatalogPolicies|here]]
 
-->
 
-->
 
+
| bgcolor="#CCCCCC" |
|bgcolor="#CCCCCC"|
+
| valign="top" |
|valign="top"|
 
 
----
 
----
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Developers Corner</span>
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Developers Corner</span>
 
----
 
----
* [[Documentation/Nightly/Developers | Information for Software Developers]]{{updated}}
+
 
: Source code, contribute patch, develop modules
+
*[[Documentation/Nightly/Developers | Information for Software Developers]]{{updated}}
 +
 
 +
:Source code, contribute patch, develop modules
  
 
<!--
 
<!--
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<!-- * [[Documentation/{{documentation/version}}/ImageGallery|Image gallery]] -->
 
<!-- * [[Documentation/{{documentation/version}}/ImageGallery|Image gallery]] -->
  
* [[Documentation/{{documentation/version}}/HowTo|Documentation guidelines]]
+
*[[Documentation/{{documentation/version}}/HowTo|Documentation guidelines]]
:  Slicer user documentation principle and guidelines
 
  
* [[Slicer4:VisualBlog|Visual blog]]
+
:Slicer user documentation principle and guidelines
: Set of screenshots showing Slicer in action.
 
  
* [[Documentation/{{documentation/version}}/ReleaseNotes|Release Notes]]
+
*[[Slicer4:VisualBlog|Visual blog]]
: Platform specific issues and considerations
 
  
* [[Documentation/{{documentation/version}}/Announcements|Announcements]] & [[Documentation/{{documentation/version}}/Acknowledgments|Acknowledgments]]
+
:Set of screenshots showing Slicer in action.
  
* [[Documentation/Nightly/Registration/RegistrationLibrary|Registration Library]]
+
*[[Documentation/{{documentation/version}}/ReleaseNotes|Release Notes]]
: Real-life example cases of using the Slicer registration tools,  incl. datasets and step-by-step instructions to follow and try yourself.  
+
 
 +
:Platform specific issues and considerations
 +
 
 +
*[[Documentation/{{documentation/version}}/Announcements|Announcements]] & [[Documentation/{{documentation/version}}/Acknowledgments|Acknowledgments]]
 +
 
 +
*[[Documentation/Nightly/Registration/RegistrationLibrary|Registration Library]]
 +
 
 +
:Real-life example cases of using the Slicer registration tools,  incl. datasets and step-by-step instructions to follow and try yourself.
  
 
----
 
----
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Documentation in other languages</span>
 
<span style="color: #555555; font-size: 18px; font-weight: bold;">Documentation in other languages</span>
 
----
 
----
{{:{{FULLPAGENAME}}/Lang/ES}}  
+
{{:{{FULLPAGENAME}}/Lang/ES}}
 +
 
 +
  
 
|}
 
|}
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-->
 
-->
  
 
+
{| border="0" align="center" width="100%" cellspacing="7" cellpadding="2" valign="top"
{| border="0" align="center" width="100%" valign="top" cellspacing="7" cellpadding="2"
 
  
 
|- style="vertical-align:top; border-style:hidden;"
 
|- style="vertical-align:top; border-style:hidden;"
Line 163: Line 177:
  
 
|
 
|
 +
<br />
 +
<br />
 +
=Modules by category=
 +
 +
==Converters==
 +
 +
*[[Documentation/Nightly/Modules/CropVolume|Crop Volume]]    <small>(loadable)</small>
 +
*[[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOM Series]]    <small>(cli)</small>
 +
 +
==Diffusion==
 +
 +
*[[Documentation/Nightly/Modules/DMRIInstall|DMRI Install]]    <small>(scripted)</small>
 +
 +
<span id="Modules_by_category_Diffusion_Diffusion_Data_Conversion"></span>
 +
===Diffusion Data Conversion===
 +
 +
*DWI Convert    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Diffusion_Diffusion_Tensor_Images"></span>
 +
===Diffusion Weighted Images===
 +
 +
*BRAINS DWI Cleanup    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Diffusion_Import_and_Export"></span>
 +
===Import and Export===
 +
 +
*DWI Convert    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Diffusion_Process"></span>
 +
===Utilities===
 +
 +
*BRAINS DWI Cleanup    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTI Volume]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWI Volume]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Endoscopy"></span>
 +
==Endoscopy==
 +
 +
*[[Documentation/Nightly/Modules/Endoscopy|Endoscopy]]    <small>(scripted)</small>
 +
 +
<span id="Modules_by_category_Filter"></span>
 +
==Filter==
 +
 +
*IslandRemoval    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Filtering"></span>
 +
==Filtering==
 +
 +
*[[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4 ITK Bias Field Correction]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Filtering_Arithmetic"></span>
 +
===Arithmetic===
 +
 +
*[[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Filtering_Denoising"></span>
 +
===Denoising===
 +
 +
*[[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Filtering_Morphology"></span>
 +
===Morphology===
 +
 +
*[[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_IGT"></span>
 +
==IGT==
 +
 +
*[[Documentation/Nightly/Modules/OpenIGTLinkIF|OpenIGTLink IF]]    <small>(loadable)</small>
 +
 +
<span id="Modules_by_category_Informatics"></span>
 +
==Informatics==
 +
 +
*[[Documentation/Nightly/Modules/SEG2NRRD|SEG 2 NRRD]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/Tables|Tables]]    <small>(loadable)</small>
 +
*[[Documentation/Nightly/Modules/Data|Data]]    <small>(loadable)</small>
 +
*DumpSEGFrame    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/Terminologies|Terminologies]]    <small>(loadable)</small>
 +
*[[Documentation/Nightly/Modules/Units|Units]]    <small>(loadable)</small>
 +
*[{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicom.html DICOM]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/SampleData|Sample Data]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/Colors|Colors]]    <small>(loadable)</small>
 +
*[[Documentation/Nightly/Modules/Annotations|Annotations]]    <small>(loadable)</small>
 +
*[[Documentation/Nightly/Modules/Markups|Markups]]    <small>(loadable)</small>
 +
 +
<span id="Modules_by_category_Informatics_Converters"></span>
 +
===Converters===
 +
 +
*[[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Legacy"></span>
 +
==Legacy==
 +
<span id="Modules_by_category_Legacy_Converters"></span>
 +
===Converters===
 +
 +
*[[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Legacy_Filtering"></span>
 +
===Filtering===
 +
 +
*[[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Legacy_Registration"></span>
 +
===Registration===
 +
 +
*Test Grid Transform Registration    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]]    <small>(cli)</small>
 +
 +
==MultiVolume Support==
 +
 +
*[[Documentation/Nightly/Modules/MultiVolumeImporter|MultiVolume Importer]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/MultiVolumeExplorer|MultiVolume Explorer]]    <small>(loadable)</small>
 +
 +
<span id="Modules_by_category_Quantification"></span>
 +
==Quantification==
 +
 +
*[[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PET Standard Uptake Value Computation]]    <small>(cli)</small>
 +
*SegmentStatistics    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]]    <small>(scripted)</small>
 +
*BRAINSLabelStats    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/DataProbe|Data Probe]]    <small>(scripted)</small>
 +
 +
<span id="Modules_by_category_Registration"></span>
 +
==Registration==
 +
 +
*[[Documentation/Nightly/Modules/Transforms|Transforms]]    <small>(loadable)</small>
 +
*BRAINSResize    <small>(cli)</small>
 +
*PerformMetricTest    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/BRAINSResample|BRAINS Resample]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/BRAINSFit|General registration (BRAINS)]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Registration_Specialized"></span>
 +
===Specialized===
 +
 +
*[[Documentation/Nightly/Modules/ACPCTransform|AC-PC Transform]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINS Demon Warp]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/Reformat|Reformat]]    <small>(loadable)</small>
 +
*VBRAINSDemonWarp    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Segmentation"></span>
 +
==Segmentation==
 +
 +
*[[Documentation/Nightly/Modules/Segmentations|Segmentations]]    <small>(loadable)</small>
 +
*[{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/segmenteditor.html Segment Editor]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/Editor|Editor]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/EMSegment|EMSegment]]    <small>(loadable)</small>
 +
*EMSegmentQuick    <small>(loadable)</small>
 +
 +
<span id="Modules_by_category_Segmentation_Specialized"></span>
 +
===Specialized===
 +
 +
*BRAINS ROI Auto    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]]    <small>(cli)</small>
 +
*EMSegment CommandLine    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Surface_Models"></span>
 +
==Surface Models==
 +
 +
*[[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ModelMaker|Model Maker]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ModelToLabelMap|Model To LabelMap]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/MergeModels|Merge Models]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/LabelMapSmoothing|LabelMap Smoothing]]    <small>(cli)</small>
 +
*[[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]]    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Utilities"></span>
 +
==Utilities==
 +
 +
*[[Documentation/Nightly/Modules/ScreenCapture|Screen Capture]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/DataStore|Data Store]]    <small>(loadable)</small>
 +
*[{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicompatcher.html DICOM Patcher]    <small>(scripted)</small>
 +
*BRAINS Strip Rotation    <small>(cli)</small>
 +
*EMSegment Transform To New Format    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Utilities_BRAINS"></span>
 +
===BRAINS===
 +
 +
*BRAINS Transform Convert    <small>(cli)</small>
 +
 +
<span id="Modules_by_category_Wizards"></span>
 +
==Wizards==
 +
 +
*[[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]]    <small>(scripted)</small>
 +
 +
<span id="Modules_by_category_Developer_Tools"></span>
 +
==Developer Tools==
  
<br/>
+
*[[Documentation/Nightly/Modules/Cameras|Cameras]]    <small>(loadable)</small>
<br/>
+
*[[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]]    <small>(cli)</small>
= Modules by category =
+
*[[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]]    <small>(scripted)</small>
 +
*[[Documentation/Nightly/Modules/EventBroker|Event Broker]]
 +
*Double Arrays    <small>(loadable)</small>
  
== Converters ==
+
<span id="Modules_by_category_Developer_Tools_DICOM_Plugins"></span>
* [[Documentation/Nightly/Modules/CropVolume|Crop Volume]]    <small>(loadable)</small>
+
===DICOM Plugins===
* [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOM Series]]    <small>(cli)</small>
 
== Diffusion ==
 
* [[Documentation/Nightly/Modules/DMRIInstall|DMRI Install]]    <small>(scripted)</small>
 
<span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'></span>
 
=== Diffusion Data Conversion ===
 
* DWI Convert    <small>(cli)</small>
 
<span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'></span>
 
=== Diffusion Weighted Images ===
 
* BRAINS DWI Cleanup    <small>(cli)</small>
 
<span id='Modules_by_category_Diffusion_Import_and_Export'></span>
 
=== Import and Export ===
 
* DWI Convert    <small>(cli)</small>
 
<span id='Modules_by_category_Diffusion_Process'></span>
 
=== Utilities ===
 
* BRAINS DWI Cleanup    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTI Volume]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWI Volume]]    <small>(cli)</small>
 
<span id='Modules_by_category_Endoscopy'></span>
 
== Endoscopy ==
 
* [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]]    <small>(scripted)</small>
 
<span id='Modules_by_category_Filter'></span>
 
== Filter ==
 
* IslandRemoval    <small>(cli)</small>
 
<span id='Modules_by_category_Filtering'></span>
 
== Filtering ==
 
* [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4 ITK Bias Field Correction]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]]    <small>(cli)</small>
 
<span id='Modules_by_category_Filtering_Arithmetic'></span>
 
=== Arithmetic ===
 
* [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]]    <small>(cli)</small>
 
<span id='Modules_by_category_Filtering_Denoising'></span>
 
=== Denoising ===
 
* [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]]    <small>(cli)</small>
 
<span id='Modules_by_category_Filtering_Morphology'></span>
 
=== Morphology ===
 
* [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/GrayscaleGrindPeakImageFilter|Grayscale Grind Peak Image Filter]]    <small>(cli)</small>
 
<span id='Modules_by_category_IGT'></span>
 
== IGT ==
 
* [[Documentation/Nightly/Modules/OpenIGTLinkIF|OpenIGTLink IF]]    <small>(loadable)</small>
 
<span id='Modules_by_category_Informatics'></span>
 
== Informatics ==
 
* [[Documentation/Nightly/Modules/SEG2NRRD|SEG 2 NRRD]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/Tables|Tables]]    <small>(loadable)</small>
 
* [[Documentation/Nightly/Modules/Data|Data]]    <small>(loadable)</small>
 
* DumpSEGFrame    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/Terminologies|Terminologies]]    <small>(loadable)</small>
 
* [[Documentation/Nightly/Modules/Units|Units]]    <small>(loadable)</small>
 
* [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicom.html DICOM]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/SampleData|Sample Data]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/Colors|Colors]]    <small>(loadable)</small>
 
* [[Documentation/Nightly/Modules/Annotations|Annotations]]    <small>(loadable)</small>
 
* [[Documentation/Nightly/Modules/Markups|Markups]]    <small>(loadable)</small>
 
<span id='Modules_by_category_Informatics_Converters'></span>
 
=== Converters ===
 
* [[Documentation/Nightly/Modules/EncodeSEG|Encode SEG]]    <small>(cli)</small>
 
<span id='Modules_by_category_Legacy'></span>
 
== Legacy ==
 
<span id='Modules_by_category_Legacy_Converters'></span>
 
=== Converters ===
 
* [[Documentation/Nightly/Modules/BSplineToDeformationField|BSpline To Deformation Field]]    <small>(cli)</small>
 
<span id='Modules_by_category_Legacy_Filtering'></span>
 
=== Filtering ===
 
* [[Documentation/Nightly/Modules/OtsuThresholdImageFilter|Otsu Threshold Image Filter]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ResampleScalarVolume|Resample Scalar Volume]]    <small>(cli)</small>
 
<span id='Modules_by_category_Legacy_Registration'></span>
 
=== Registration ===
 
* Test Grid Transform Registration    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ExpertAutomatedRegistration|Expert Automated Registration]]    <small>(cli)</small>
 
== MultiVolume Support ==
 
* [[Documentation/Nightly/Modules/MultiVolumeImporter|MultiVolume Importer]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/MultiVolumeExplorer|MultiVolume Explorer]]    <small>(loadable)</small>
 
<span id='Modules_by_category_Quantification'></span>
 
== Quantification ==
 
* [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PET Standard Uptake Value Computation]]    <small>(cli)</small>
 
* SegmentStatistics    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]]    <small>(scripted)</small>
 
* BRAINSLabelStats    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/DataProbe|Data Probe]]    <small>(scripted)</small>
 
<span id='Modules_by_category_Registration'></span>
 
== Registration ==
 
* [[Documentation/Nightly/Modules/Transforms|Transforms]]    <small>(loadable)</small>
 
* BRAINSResize    <small>(cli)</small>
 
* PerformMetricTest    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/BRAINSResample|BRAINS Resample]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/BRAINSFit|General registration (BRAINS)]]    <small>(cli)</small>
 
<span id='Modules_by_category_Registration_Specialized'></span>
 
=== Specialized ===
 
* [[Documentation/Nightly/Modules/ACPCTransform|AC-PC Transform]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINS Demon Warp]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/Reformat|Reformat]]    <small>(loadable)</small>
 
* VBRAINSDemonWarp    <small>(cli)</small>
 
<span id='Modules_by_category_Segmentation'></span>
 
== Segmentation ==
 
* [[Documentation/Nightly/Modules/Segmentations|Segmentations]]    <small>(loadable)</small>
 
* [http://slicer.readthedocs.io/en/latest/user_guide/module_segmenteditor.html Segment Editor]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/Editor|Editor]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/EMSegment|EMSegment]]    <small>(loadable)</small>
 
* EMSegmentQuick    <small>(loadable)</small>
 
<span id='Modules_by_category_Segmentation_Specialized'></span>
 
=== Specialized ===
 
* BRAINS ROI Auto    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]]    <small>(cli)</small>
 
* EMSegment CommandLine    <small>(cli)</small>
 
<span id='Modules_by_category_Surface_Models'></span>
 
== Surface Models ==
 
* [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ModelMaker|Model Maker]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ModelToLabelMap|Model To LabelMap]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/MergeModels|Merge Models]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/LabelMapSmoothing|LabelMap Smoothing]]    <small>(cli)</small>
 
* [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]]    <small>(cli)</small>
 
<span id='Modules_by_category_Utilities'></span>
 
== Utilities ==
 
* [[Documentation/Nightly/Modules/ScreenCapture|Screen Capture]]    <small>(scripted)</small>
 
* [[Documentation/Nightly/Modules/DataStore|Data Store]]    <small>(loadable)</small>
 
* [{{documentation/{{documentation/version}}/slicer-manual-base-url}}/user_guide/modules/dicompatcher.html DICOM Patcher]    <small>(scripted)</small>
 
* BRAINS Strip Rotation    <small>(cli)</small>
 
* EMSegment Transform To New Format    <small>(cli)</small>
 
<span id='Modules_by_category_Utilities_BRAINS'></span>
 
=== BRAINS ===
 
* BRAINS Transform Convert    <small>(cli)</small>
 
<span id='Modules_by_category_Wizards'></span>
 
== Wizards ==
 
* [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]]    <small>(scripted)</small>
 
  
<span id='Modules_by_category_Developer_Tools'></span>
+
*DICOMParametricMapPlugin
== Developer Tools ==
+
*DicomUltrasoundPlugin
* [[Documentation/Nightly/Modules/Cameras|Cameras]]    <small>(loadable)</small>
+
*DICOMSegmentationPlugin
* [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]]    <small>(cli)</small>
+
*DICOMSlicerDataBundlePlugin
* [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]]    <small>(scripted)</small>
+
*DICOMTID1500Plugin
* [[Documentation/Nightly/Modules/EventBroker|Event Broker]]
+
*[[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]
* Double Arrays    <small>(loadable)</small>
+
*DICOMScalarVolumePlugin
<span id='Modules_by_category_Developer_Tools_DICOM_Plugins'></span>
+
*DICOMDiffusionVolumePlugin
=== DICOM Plugins ===
+
*DICOMLongitudinalPETCTPlugin
* DICOMParametricMapPlugin
+
*DicomSroImportPlugin
* DicomUltrasoundPlugin
+
*[[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]
* DICOMSegmentationPlugin
+
*DicomRtImportExportPlugin
* DICOMSlicerDataBundlePlugin
+
*MultiVolumeImporterPlugin
* DICOMTID1500Plugin
 
* [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]
 
* DICOMScalarVolumePlugin
 
* DICOMDiffusionVolumePlugin
 
* DICOMLongitudinalPETCTPlugin
 
* DicomSroImportPlugin
 
* [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]
 
* DicomRtImportExportPlugin
 
* MultiVolumeImporterPlugin
 
  
 
|}
 
|}

Revision as of 19:11, 2 November 2020

Home < Documentation < Nightly

For the stable Slicer documentation, visit the 4.10 page.


Nightly 4.10 4.8 4.6 4.5 4.4 4.3 4.2 4.1 4.0 3.6 3.5 3.4 3.2 ALL VERSIONS


Where to start ?


Quick overview about Slicer
Information on how to use Slicer Nightly
Set of common questions/answers
The most effective way to get help from the community

How to



Slicer Application




Modules


 

SlicerAnnotationsV2-Small.png Annotations

DataIcon.png Data

DataStoreIcon 128.png Data Store

DICOM.png DICOM

Editor.png Editor

Markups.png Markups

SlicerModels-Small.png Models

SceneViews.png Scene Views

Segmentations.png Segmentations

SegmentEditor.png Segment Editor

Transforms.png Transforms

ViewControllersIcon.png View Controllers

VolumeRendering.png Volume Rendering

SlicerVolume-Small.png Volumes

Welcome.png Welcome to Slicer





Developers Corner


Source code, contribute patch, develop modules

Miscellaneous


Slicer user documentation principle and guidelines
Set of screenshots showing Slicer in action.
Platform specific issues and considerations
Real-life example cases of using the Slicer registration tools, incl. datasets and step-by-step instructions to follow and try yourself.

Documentation in other languages






Extensions by name

83 extensions:




Modules by category

Converters

Diffusion

Diffusion Data Conversion

  • DWI Convert (cli)

Diffusion Weighted Images

  • BRAINS DWI Cleanup (cli)

Import and Export

  • DWI Convert (cli)

Utilities

Endoscopy

Filter

  • IslandRemoval (cli)

Filtering

Arithmetic

Denoising

Morphology

IGT

Informatics

Converters

Legacy

Converters

Filtering

Registration

MultiVolume Support

Quantification

Registration

Specialized

Segmentation

Specialized

Surface Models

Utilities

BRAINS

  • BRAINS Transform Convert (cli)

Wizards

Developer Tools

DICOM Plugins

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