diff --git a/Auto3dgm.s4ext b/Auto3dgm.s4ext index 944a8c3da..f387487eb 100644 --- a/Auto3dgm.s4ext +++ b/Auto3dgm.s4ext @@ -27,7 +27,7 @@ iconurl https://raw.githubusercontent.com/ToothAndClaw/SlicerAuto3dgm/master/Aut status beta # One line stating what the module does -description Auto3dgm allows for comparative analysis of 3D digital models representing biological surfaces. +description Auto3dgm allows for comparative analysis of 3D digital models representing biological surfaces. Unlike other three-dimensional geometric morphometric (3DGM) methods this software uses a fully automated procedure for placing landmarks on the surfaces. This allows for the alignment of surfaces followed by measuring distance between surfaces with minimal user intervention.

The goal of this NSF funded project is to extend Auto3dgm to open source software platform and make it more user-friendly to a larger scientific community. Towards this goal, we developed the Auto3dgm module in 3D Slicer, an open source software platform for medical image informatics, image processing, and three-dimensional visualization. The module enables scientists to perform Auto3dgm on a collection of shapes effectively within 3D Slicer. The package also alllows users to visualize and save the aligned results to local machines for downstream analysis.

This project is supported by a NSF Advances in Biological Informatics Collaborative grant to Murat Maga (ABI-1759883), Adam Summers (ABI-1759637) and Doug Boyer (ABI-1759839). # Space separated list of urls screenshoturls https://raw.githubusercontent.com/ToothAndClaw/SlicerAuto3dgm/master/Auto3dgmScreenshot.png diff --git a/AutomatedDentalTools.s4ext b/AutomatedDentalTools.s4ext index d800bf3e1..c13dfa6f3 100644 --- a/AutomatedDentalTools.s4ext +++ b/AutomatedDentalTools.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/DCBIA-OrthoLab/SlicerAutomatedDentalTools#readme # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Maxime Gillot (University of Michigan), Baptiste Baquero (UoM), Juan Carlos Prieto (University of North Carolina) +contributors Maxime Gillot (University of Michigan), Baptiste Baquero (UoM), Juan Carlos Prieto (University of North Carolina), Nathan Hutin (UoM), Luc Anchling (UoM), Jeanne Claret (UoM) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation @@ -37,7 +37,7 @@ iconurl https://raw.githubusercontent.com/DCBIA-OrthoLab/SlicerAutomatedDentalTo status # One line stating what the module does -description This extension will allow clinicians to perform automatic CBCT scan segmentation as well as automatic lamndmark identification in CBCT and IOS using machine learning tools +description This extension will allow clinicians to perform automatic CBCT scan segmentation as well as automatic lamndmark identification in CBCT and IOS using machine learning tools. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/DCBIA-OrthoLab/SlicerAutomatedDentalTools/main/ADT-exemple.png diff --git a/BigImage.s4ext b/BigImage.s4ext index 2a6a68ba1..8c1fca65e 100644 --- a/BigImage.s4ext +++ b/BigImage.s4ext @@ -22,7 +22,7 @@ homepage https://slicerscope.github.io # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Yi Gao (Shenzhen University) +contributors Yi Gao (Shenzhen University), Andras Lasso (PerkLab, Queen's University) # Match category in the xml description of the module (where it shows up in Modules menu) category BigImage @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/gaoyi/SlicerBigImage/main/SlicerBigIma status # One line stating what the module does -description BigImage is the extension hosting 3D Slicer based GB-level microscopic image viewing and computing. +description BigImage is the extension for viewing and analyzing big (>1GB) microscopy and other images. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/gaoyi/SlicerBigImage/main/Screenshots/1.png diff --git a/BoneThicknessMapping.s4ext b/BoneThicknessMapping.s4ext index 572f16c4e..2ca19b511 100644 --- a/BoneThicknessMapping.s4ext +++ b/BoneThicknessMapping.s4ext @@ -15,7 +15,7 @@ build_subdirectory . homepage https://github.com/Auditory-Biophysics-Lab/SlicerBoneThicknessMappingExtension # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) -contributors Evan Simpson (Western University) +contributors Evan Simpson (HML & SKA Lab, Western University) # Match category in the xml description of the module (where it shows up in Modules menu) category Shape Analysis @@ -27,10 +27,10 @@ iconurl https://raw.githubusercontent.com/Auditory-Biophysics-Lab/SlicerBoneThic status beta # One line stating what the module does -description This module calculates and visualizes bone thickness of a volume using VTK ray-casting +description 3D Slicer extension that calculates the bone thickness of a volume using VTK ray-casting. # Space separated list of urls -screenshoturls https://raw.githubusercontent.com/Auditory-Biophysics-Lab/SlicerBoneThicknessMappingExtension/master/Images/general_screenshot.png +screenshoturls https://raw.githubusercontent.com/Auditory-Biophysics-Lab/SlicerBoneThicknessMappingExtension/master/Images/general_screenshot.png https://raw.githubusercontent.com/Auditory-Biophysics-Lab/Slicer-BoneThicknessMapping/master/Images/complete.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/BrainVolumeRefinement.s4ext b/BrainVolumeRefinement.s4ext index bb76b36b2..8814a5e9d 100644 --- a/BrainVolumeRefinement.s4ext +++ b/BrainVolumeRefinement.s4ext @@ -28,7 +28,7 @@ contributors Antonio Carlos da S. Senra Filho, Fabricio H. Simozo, Luiz Otavio M category Segmentation # url to icon (png, size 128x128 pixels) -iconurl https://www.slicer.org/slicerWiki/images/2/2c/BVeR-logo.png +iconurl https://raw.githubusercontent.com/CSIM-Toolkits/SlicerBrainVolumeRefinement/master/BrainVolumeRefinement.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? diff --git a/Breast_DCEMRI_FTV.s4ext b/Breast_DCEMRI_FTV.s4ext index 83529fde9..2da0e9890 100644 --- a/Breast_DCEMRI_FTV.s4ext +++ b/Breast_DCEMRI_FTV.s4ext @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/rnadkarni2/SlicerBreast_DCEMRI_FTV/mas status # One line stating what the module does -description This extension contains both of the modules needed to compute functional tumor volume (FTV) from a dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) exam of a breast cancer patient. The current version of this extension is intended for use on bilateral breast MR exams with axial slices. +description This extension contains both of the modules needed to compute functional tumor volume (FTV) from a dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) exam of a breast cancer patient. The current version of this extension is intended for use on bilateral breast MR exams with axial slices. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/rnadkarni2/SlicerBreast_DCEMRI_FTV/master/Module1Screenshot.png https://raw.githubusercontent.com/rnadkarni2/SlicerBreast_DCEMRI_FTV/master/Module2Screenshot.png diff --git a/CleverSeg.s4ext b/CleverSeg.s4ext index 1dbaf0c25..aefc433b3 100644 --- a/CleverSeg.s4ext +++ b/CleverSeg.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/lassoan/SlicerCleverSegmentation#cleversegmentation # Jonathan Ramos ([University of São Paulo - USP, ] ICMC) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Jonathan Ramos (University of São Paulo - USP), ICMC +contributors Jonathan Ramos (ICMC, University of São Paulo - USP) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/lassoan/SlicerCleverSegmentation/maste status Beta # One line stating what the module does -description his is the implementation of the CleverSeg method that supports multi-label segmentations +description This is the implementation of the CleverSeg method that supports multi-label segmentations # Space separated list of urls screenshoturls https://user-images.githubusercontent.com/3834596/66679138-d7dc1700-ec43-11e9-8c36-51976a1121d3.png https://user-images.githubusercontent.com/3834596/66679174-f215f500-ec43-11e9-84f1-85f8b5c4d568.png diff --git a/DatabaseInteractor.s4ext b/DatabaseInteractor.s4ext index 845bd5039..22f33db04 100644 --- a/DatabaseInteractor.s4ext +++ b/DatabaseInteractor.s4ext @@ -28,7 +28,7 @@ contributors Clement Mirabel (University of Michigan), Juan Carlos Prieto (UNC) category Web System Tools # url to icon (png, size 128x128 pixels) -iconurl https://www.slicer.org/slicerWiki/images/7/7f/DatabaseInteractor_Logo.png +iconurl https://raw.githubusercontent.com/DCBIA-OrthoLab/DatabaseInteractorExtension/master/DatabaseInteractor.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? @@ -38,7 +38,7 @@ status description This extension can interact with online data in a database and local folders. # Space separated list of urls -screenshoturls https://www.slicer.org/slicerWiki/images/1/1f/FullView_DatabaseInteractor.png +screenshoturls https://raw.githubusercontent.com/DCBIA-OrthoLab/DatabaseInteractorExtension/master/FullView_DatabaseInteractor.png https://raw.githubusercontent.com/DCBIA-OrthoLab/DatabaseInteractorExtension/master/DatabaseInteractor_Interface.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/DeveloperToolsForExtensions.s4ext b/DeveloperToolsForExtensions.s4ext index 1c2799336..e8eff154e 100644 --- a/DeveloperToolsForExtensions.s4ext +++ b/DeveloperToolsForExtensions.s4ext @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/Slicer/SlicerDeveloperToolsForExte status # One line stating what the module does -description This extension offers different tools to help developers when they create Slicer extension. +description This extension offers different tools to help developers when they create and maintain Slicer extension. # Space separated list of urls screenshoturls https://www.slicer.org/slicerWiki/images/5/54/SlicerExtension-SlicerDeveloperToolsForExtensions-Screenshot.png https://www.slicer.org/slicerWiki/images/d/db/SlicerExtensions-SlicerDeveloperToolsForExtensions-Screenshot-panels.png diff --git a/DiffusionQC.s4ext b/DiffusionQC.s4ext index 7e17cdf2b..bef780eb1 100644 --- a/DiffusionQC.s4ext +++ b/DiffusionQC.s4ext @@ -8,7 +8,7 @@ build_subdirectory . homepage https://github.com/pnlbwh/SlicerDiffusionQC -contributors Tashrif Billah, Isaiah Norton, Yogesh Rathi, Sylvain Bouix (Brigham & Women's Hospital). +contributors Tashrif Billah (Brigham & Women's Hospital), Isaiah Norton (Brigham & Women's Hospital), Yogesh Rathi (Brigham & Women's Hospital), Sylvain Bouix (Brigham & Women's Hospital) category Diffusion diff --git a/ExtraMarkups.s4ext b/ExtraMarkups.s4ext index 07f0517c0..bc2fef1e6 100644 --- a/ExtraMarkups.s4ext +++ b/ExtraMarkups.s4ext @@ -38,7 +38,7 @@ status description This extension adds a Label markups node that draws an arrow with a text label, and a Shape markups node that can draw defined primitive shapes (circle, cone...). The result is controlled by placing usual control points in slice views and 3D views. Each object can be saved in scene and reloaded. # Space separated list of urls -screenshoturls https://github.com/chir-set/SlicerExtraMarkups/raw/main/Label/Label_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Cone_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Cylinder_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Disk_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Ring_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Sphere_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Tube_0.png +screenshoturls https://github.com/chir-set/SlicerExtraMarkups/raw/main/Label/Label_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Cone_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Cylinder_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Disk_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Ring_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Sphere_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Tube_0.png https://github.com/chir-set/SlicerExtraMarkups/raw/main/Shape/Arc_0.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/IDCBrowser.s4ext b/IDCBrowser.s4ext index 0655aa2a4..f397a7e07 100644 --- a/IDCBrowser.s4ext +++ b/IDCBrowser.s4ext @@ -22,7 +22,7 @@ contributors Andrey Fedorov (SPL and BWH) category Informatics # url to icon (png, size 128x128 pixels) -iconurl https://github.com/ImagingDataCommons/SlicerIDCBrowser/blob/main/IDCBrowser/Resources/Icons/IDCBrowser_alpha.png +iconurl https://raw.githubusercontent.com/ImagingDataCommons/SlicerIDCBrowser/main/IDCBrowser/Resources/Icons/IDCBrowser.png # Give people an idea what to expect from this code # - Is it just a test or something you stand beind? diff --git a/ImageCompare.s4ext b/ImageCompare.s4ext index 7752c2486..e4d604f61 100644 --- a/ImageCompare.s4ext +++ b/ImageCompare.s4ext @@ -20,7 +20,7 @@ build_subdirectory . # homepage homepage https://www.slicer.org/wiki/Documentation/Nightly/Extensions/ImageCompare -contributors Paolo Zaffino(Magna Graecia Univeristy of Catanzaro, Italy), Maria Francesca Spadea(Magna Graecia Univeristy of Catanzaro, Italy) +contributors Paolo Zaffino (Magna Graecia University of Catanzaro, Italy), Maria Francesca Spadea (Magna Graecia University of Catanzaro, Italy) # Match category in the xml description of the module (where it shows up in Modules menu) category Quantification diff --git a/KidneyStoneCalculator.s4ext b/KidneyStoneCalculator.s4ext index a29c9fb9c..69a6adff1 100644 --- a/KidneyStoneCalculator.s4ext +++ b/KidneyStoneCalculator.s4ext @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/fredericpanthier/SlicerKidneyStoneCalc status # One line stating what the module does -description volumetric evaluation of kidney stones and estimatation of lithotripsy time (surgical duration) +description Extension for volumetric evaluation of kidney stones and estimatation of lithotripsy time (surgical duration). # Space separated list of urls screenshoturls https://raw.githubusercontent.com/fredericpanthier/SlicerKidneyStoneCalculator/master/screenshot.jpg diff --git a/LungCTAnalyzer.s4ext b/LungCTAnalyzer.s4ext index 35b4e495b..5f170a494 100644 --- a/LungCTAnalyzer.s4ext +++ b/LungCTAnalyzer.s4ext @@ -12,7 +12,7 @@ scmrevision master # list dependencies # - These should be names of other modules that have .s4ext files # - The dependencies will be built first -depends NA +depends PyTorch SegmentEditorExtraEffects SurfaceWrapSolidify # Inner build directory (default is ".") build_subdirectory . diff --git a/MONAILabel.s4ext b/MONAILabel.s4ext index 771d1559f..751858770 100644 --- a/MONAILabel.s4ext +++ b/MONAILabel.s4ext @@ -38,7 +38,7 @@ status description This extension offers Active Learning solution developed under project MONAILabel (Powered by the NVIDIA, KCL). # Space separated list of urls -screenshoturls https://github.com/Project-MONAI/MONAILabel/raw/main/plugins/slicer/MONAILabel/Screenshots/1.png +screenshoturls https://github.com/Project-MONAI/MONAILabel/raw/main/plugins/slicer/MONAILabel/Screenshots/1.png https://github.com/Project-MONAI/MONAILabel/raw/main/plugins/slicer/MONAILabel/Screenshots/2.png https://github.com/Project-MONAI/MONAILabel/raw/main/plugins/slicer/MONAILabel/Screenshots/3.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/MONAIViz.s4ext b/MONAIViz.s4ext index 3d727ef5f..25ac588f4 100644 --- a/MONAIViz.s4ext +++ b/MONAIViz.s4ext @@ -12,7 +12,7 @@ scmrevision main # list dependencies # - These should be names of other modules that have .s4ext files # - The dependencies will be built first -depends NA +depends PyTorch # Inner build directory (default is ".") build_subdirectory . diff --git a/MUST-segmenter.s4ext b/MUST-segmenter.s4ext index 72aa1b261..49ca26f6d 100644 --- a/MUST-segmenter.s4ext +++ b/MUST-segmenter.s4ext @@ -38,8 +38,7 @@ status description Multiple SUV Thresholding (MUST)-segmenter is a semi-automated PET image segmentation tool that enables delineation of multiple lesions at once, and extracts the lesions' features. # Space separated list of urls -screenshoturls https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/Slicer-MUST-segmenter_screenshot.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/9.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/12.png -https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/10.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/25.png +screenshoturls https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/Slicer-MUST-segmenter_screenshot.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/9.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/12.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/10.png https://raw.githubusercontent.com/kyliekeijzer/Slicer-PET-MUST-segmenter/master/screenshots/25.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/MatlabBridge.s4ext b/MatlabBridge.s4ext index 98e86f205..f475f4eea 100644 --- a/MatlabBridge.s4ext +++ b/MatlabBridge.s4ext @@ -35,7 +35,7 @@ iconurl https://www.slicer.org/slicerWiki/images/e/e8/MatlabBridgeLogo.png status # One line stating what the module does -description The Matlab Bridge extension allows running Matlab scripts as command-line interface (CLI) modules directly from 3D Slicer. The only prerequisites for running Matlab scripts are having this extension and Matlab installed on the 3D Slicer computer (building of 3D Slicer, MEX files, etc. is not needed). +description The Matlab Bridge extension allows running Matlab scripts as command-line interface (CLI) modules directly from 3D Slicer. The only prerequisites for running Matlab scripts are having this extension and Matlab installed on the 3D Slicer computer (building of 3D Slicer, MEX files, etc. is not needed). Extension version: 0.14.0. # Space separated list of urls screenshoturls https://www.slicer.org/slicerWiki/images/2/2f/MatlabBridgeScreenshot1.png https://www.slicer.org/slicerWiki/images/1/16/MatlabBridgeScreenshot2.png https://www.slicer.org/slicerWiki/images/b/b9/MatlabBridgeScreenshot3.png diff --git a/ModelClip.s4ext b/ModelClip.s4ext index 0187ad7f4..c608a4f55 100644 --- a/ModelClip.s4ext +++ b/ModelClip.s4ext @@ -28,7 +28,7 @@ contributors Jun LIN, Xiaojun CHEN, Ph.D (SJTU) category Surface Models # url to icon (png, size 128x128 pixels) -iconurl https://www.slicer.org/slicerWiki/images/b/bd/ModelClipIcon.png +iconurl https://raw.githubusercontent.com/jamesobutler/ModelClip/main/Resources/Icons/ModelClip.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? @@ -38,7 +38,7 @@ status description This is an extension module to set the osteotomy trajectory with multiple planes and clip with just one click. # Space separated list of urls -screenshoturls https://www.slicer.org/slicerWiki/index.php/File:ModelClipScreenShot.png +screenshoturls https://raw.githubusercontent.com/jamesobutler/ModelClip/main/ModelClipScreenShot.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/NNUNet.s4ext b/NNUNet.s4ext index 624866df7..29594fde7 100644 --- a/NNUNet.s4ext +++ b/NNUNet.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/KitwareMedical/SlicerNNUnet # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Thibault Pelletier (KITWARE SAS) +contributors Thibault Pelletier (Kitware SAS) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation @@ -35,7 +35,7 @@ iconurl https://github.com/KitwareMedical/SlicerNNUnet/raw/main/SlicerNNUnet/Res status stable # One line stating what the module does -description 3D Slicer nnUNet integration to streamline usage for nnUNet based AI extensions. +description 3D Slicer nnUNet integration to streamline usage for nnUNet based AI extensions.

It allows for quick and relable nnUNet dependency installation in 3D Slicer environment and provides simple logic to launch nnUNet prediction on given directories.

The installation steps are based on the work done in the SlicerTotalSegmentator exension (https://github.com/lassoan/SlicerTotalSegmentator) # Space separated list of urls screenshoturls https://github.com/KitwareMedical/SlicerNNUnet/raw/main/Screenshots/1.png diff --git a/NvidiaAIAssistedAnnotation.s4ext b/NvidiaAIAssistedAnnotation.s4ext index 7599c074e..ee8cca03b 100644 --- a/NvidiaAIAssistedAnnotation.s4ext +++ b/NvidiaAIAssistedAnnotation.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/NVIDIA/ai-assisted-annotation-client/tree/master/sli # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Sachidanand Alle (NVIDIA) +contributors Sachidanand Alle (NVIDIA), Andras Lasso (PerkLab) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation diff --git a/OrthodonticAnalysis.s4ext b/OrthodonticAnalysis.s4ext index 2d7e9c6b5..f24c188b3 100644 --- a/OrthodonticAnalysis.s4ext +++ b/OrthodonticAnalysis.s4ext @@ -35,12 +35,7 @@ iconurl https://raw.githubusercontent.com/OrthodonticAnalysis/SlicerOrthodonticA status # One line stating what the module does -description The extension was developed to perform the most common dental analysis: model space discrepancies, Bolton and Peck and Peck. All point instructions for performing the analysis are available in Python interactor after study method points are selected. The Analysis button shows the result. -The model discrepancy calculates the difference between the required space and the present space. If the difference is positive, there is an excess of space available, if the difference is negative, it means that there is a space deficit. -The required upper and lower spaces are obtained from measurements of the mesiodistal diameters of the incisors, canines, and premolars. The present spaces are obtained in six straight line segments: from the mesial face of the first molar to the distal face of the canine, from the distal face of the canine to the mesial face of the canine and from the mesial face of the canine to the midline. -Bolton's analysis takes into account two proportional size ratios between the upper and lower arches. The first is based on the sums of mesiodistal diameters of the teeth from the first molars, including the same, totaling 12 teeth per arch. The second is based on the sums of mesiodistal diameters of the teeth from the canines, including the canines, totaling 6 teeth per arch. -The teeth evaluated in Peck and Peck analysis are the lower incisors. The measurements taken are the mesiodistal and buccolingual diameters. The value of the mesiodistal diameter is divided by the buccolingual diameter to obtain the proportion and make the evaluation. - +description The extension was developed to perform the most common dental analysis: model space discrepancies, Bolton and Peck and Peck. All point instructions for performing the analysis are available in Python interactor after study method points are selected. The Analysis button shows the result.

The model discrepancy calculates the difference between the required space and the present space. If the difference is positive, there is an excess of space available, if the difference is negative, it means that there is a space deficit.

The required upper and lower spaces are obtained from measurements of the mesiodistal diameters of the incisors, canines, and premolars. The present spaces are obtained in six straight line segments: from the mesial face of the first molar to the distal face of the canine, from the distal face of the canine to the mesial face of the canine and from the mesial face of the canine to the midline.

Bolton's analysis takes into account two proportional size ratios between the upper and lower arches. The first is based on the sums of mesiodistal diameters of the teeth from the first molars, including the same, totaling 12 teeth per arch. The second is based on the sums of mesiodistal diameters of the teeth from the canines, including the canines, totaling 6 teeth per arch.

The teeth evaluated in Peck and Peck analysis are the lower incisors. The measurements taken are the mesiodistal and buccolingual diameters. The value of the mesiodistal diameter is divided by the buccolingual diameter to obtain the proportion and make the evaluation. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/OrthodonticAnalysis/SlicerOrthodonticAnalysis/master/OrthodonticAnalysisScreenshot.png diff --git a/OsteotomyPlanner.s4ext b/OsteotomyPlanner.s4ext index d453eae41..ed2bc5e5c 100644 --- a/OsteotomyPlanner.s4ext +++ b/OsteotomyPlanner.s4ext @@ -28,7 +28,7 @@ contributors Sam Horvath (Kitware Inc.), Johan Andruejol (Kitware Inc.) category Osteotomy Planning # url to icon (png, size 128x128 pixels) -iconurl https://github.com/KitwareMedical/OsteotomyPlanner/blob/master/ReplayPlan/Resources/Icons/ReplayPlan.png +iconurl https://raw.githubusercontent.com/KitwareMedical/OsteotomyPlanner/master/ReplayPlan/Resources/Icons/ReplayPlan.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? diff --git a/PETCPhantom.s4ext b/PETCPhantom.s4ext index 197b6dec8..8c6b28f5e 100644 --- a/PETCPhantom.s4ext +++ b/PETCPhantom.s4ext @@ -35,10 +35,10 @@ iconurl https://raw.githubusercontent.com/QIICR/SlicerPETPhantomAnalysis/mas status # One line stating what the module does -description The PETCPhantom Extension allows measurement of calibration and uniformity in a cylinder phantom PET scan. +description The PET Phantom Analysis Extension allows measurement of calibration and uniformity in a cylinder phantom PET scan. # Space separated list of urls -screenshoturls +screenshoturls https://www.slicer.org/w/img_auth.php/0/01/PETCylinderPhantomAnalysisModule.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/PathReconstruction.s4ext b/PathReconstruction.s4ext index ea52b16ab..63963442d 100644 --- a/PathReconstruction.s4ext +++ b/PathReconstruction.s4ext @@ -35,10 +35,10 @@ iconurl https://raw.githubusercontent.com/SlicerIGT/SlicerPathReconstruction status experimental # One line stating what the module does -description The module allows creation of catheter models from electromagnetic spatial tracking. +description This extension contains a module for reconstructing catheter paths from spatial tracking information. Intended users should have real-time tracking hardware (e.g. electromagnetic field generator and sensors) connected to 3D Slicer through OpenIGTLink network. # Space separated list of urls -screenshoturls +screenshoturls https://www.slicer.org/w/img_auth.php/7/78/SlicerIGTScreenshot.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/PercutaneousApproachAnalysis.s4ext b/PercutaneousApproachAnalysis.s4ext index 05945e672..f251d67b7 100644 --- a/PercutaneousApproachAnalysis.s4ext +++ b/PercutaneousApproachAnalysis.s4ext @@ -1,6 +1,6 @@ build_subdirectory . category IGT -contributors Koichiro Murakami (Shiga University of Medical Science, Japan, SPL), Laurent Chauvin (SPL), Junichi Tokuda (SPL) +contributors Koichiro Murakami (Shiga University of Medical Science, Japan, SPL), Atsushi Yamada (Shiga University of Medical Science, Japan), Laurent Chauvin (SPL), Junichi Tokuda (SPL) depends NA description The Percutaneous Approach Analysis is used to calculate and visualize the accessibility of liver tumor with a percutaneous approach. enabled 1 diff --git a/PickAndPaintExtension.s4ext b/PickAndPaintExtension.s4ext index 6a2676b0b..945eed357 100644 --- a/PickAndPaintExtension.s4ext +++ b/PickAndPaintExtension.s4ext @@ -22,7 +22,7 @@ homepage https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Exten # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Lucie Macron (University of Michigan), Jean-Baptiste Vimort (University of Michigan) +contributors Lucie Macron (University of Michigan), Jean-Baptiste Vimort (University of Michigan), James Hoctor (Kitware Inc.) # Match category in the xml description of the module (where it shows up in Modules menu) category Shape Analysis diff --git a/Pipelines.s4ext b/Pipelines.s4ext index 32b53ef52..d0891522a 100644 --- a/Pipelines.s4ext +++ b/Pipelines.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/KitwareMedical/SlicerPipelines/blob/main/README.md # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Connor Bowley (Kitware, Inc.), Sam Horvath (Kitware, Inc.) +contributors Connor Bowley (Kitware, Inc.), Sam Horvath (Kitware, Inc.), Harald Scheirich (Kitware Inc.), David Allemang (Kitware Inc.) # Match category in the xml description of the module (where it shows up in Modules menu) category Pipelines @@ -35,10 +35,10 @@ iconurl https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Pi status # One line stating what the module does -description SlicerPipelines is an extension for 3DSlicer that offers the ability to create simple modules (aka pipelines) via a GUI interface with no coding knowledge needed +description SlicerPipelines is an extension for 3D Slicer that offers the ability to create simple modules (aka pipelines) via a GUI interface with no coding knowledge needed # Space separated list of urls -screenshoturls https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Screenshots/1.png https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Screenshots/2.png +screenshoturls https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Screenshots/1.png https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Screenshots/2.png https://raw.githubusercontent.com/KitwareMedical/SlicerPipelines/main/Screenshots/3.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/PyTorch.s4ext b/PyTorch.s4ext index 551371115..45b422f45 100644 --- a/PyTorch.s4ext +++ b/PyTorch.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/fepegar/SlicerPyTorch # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Fernando Pérez-García (University College London and King's College London) +contributors Fernando Pérez-García (University College London and King's College London), Andras Lasso (PerkLab Queen's University) # Match category in the xml description of the module (where it shows up in Modules menu) category Utilities diff --git a/Q3DC.s4ext b/Q3DC.s4ext index 67510acff..2169fa305 100644 --- a/Q3DC.s4ext +++ b/Q3DC.s4ext @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/DCBIA-OrthoLab/Q3DCExtension/master/Q3 status # One line stating what the module does -description This extension contains one module of the same name. Using placed fiducials, it allows users to compute 2D angles: Yaw, Pitch and Roll; and decompose the 3D distance into the three different components: R-L , A-P and S-I. It is possible to compute the middle point between two fiducials and export the values. +description This extension contains one module of the same name. Using placed fiducials, it allows users to compute 2D angles: Yaw, Pitch and Roll; and decompose the 3D distance into the three different components: R-L, A-P and S-I. It is possible to compute the middle point between two fiducials and export the values. # Space separated list of urls screenshoturls https://www.slicer.org/slicerWiki/index.php/File:Q3DC_Interface.png diff --git a/RVXLiverSegmentation.s4ext b/RVXLiverSegmentation.s4ext index 3a7327f7f..24d2d0a5a 100644 --- a/RVXLiverSegmentation.s4ext +++ b/RVXLiverSegmentation.s4ext @@ -12,7 +12,7 @@ scmrevision main # list dependencies # - These should be names of other modules that have .s4ext files # - The dependencies will be built first -depends MarkupsToModel SlicerVMTK SegmentEditorExtraEffects PyTorch +depends SlicerVMTK MarkupsToModel SegmentEditorExtraEffects PyTorch # Inner build directory (default is ".") build_subdirectory . @@ -22,7 +22,7 @@ homepage https://github.com/R-Vessel-X/SlicerRVXLiverSegmentation # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Lucie Macron (Kitware SAS), Thibault Pelletier (Kitware SAS), Camille Huet (Kitware SAS) +contributors Lucie Macron (Kitware SAS), Thibault Pelletier (Kitware SAS), Camille Huet (Kitware SAS), Leo Sanchez (Kitware SAS) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation diff --git a/ResectionPlanner.s4ext b/ResectionPlanner.s4ext index f75a8a9ee..bc92b4e3c 100644 --- a/ResectionPlanner.s4ext +++ b/ResectionPlanner.s4ext @@ -1,7 +1,7 @@ build_subdirectory . category IGT contributors Matt Lougheed (Queen's University) -depends NA +depends SlicerRT description Modules for surgical resection planning. enabled 1 homepage https://www.slicer.org/wiki/Documentation/Nightly/Extensions/ResectionPlanner @@ -9,5 +9,5 @@ iconurl https://wiki.slicer.org/slicerWiki/images/d/d6/ResectionPlannerLogo.png scm git scmrevision master scmurl https://github.com/SlicerIGT/ResectionPlanner.git -screenshoturls https://www.slicer.org/slicerWiki/index.php/File:ResectionVolume_Screenshot.png +screenshoturls https://www.slicer.org/w/img_auth.php/8/82/ResectionVolume_Screenshot.png status diff --git a/Sandbox.s4ext b/Sandbox.s4ext index 7c9325e16..b98119703 100644 --- a/Sandbox.s4ext +++ b/Sandbox.s4ext @@ -38,7 +38,7 @@ status description Collection of utilities that are not polished implementations but can be useful to users # Space separated list of urls -screenshoturls +screenshoturls https://raw.githubusercontent.com/PerkLab/SlicerSandbox/master/RemovePatientTable.jpg https://raw.githubusercontent.com/PerkLab/SlicerSandbox/master/Lights.jpg # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/Scoliosis.s4ext b/Scoliosis.s4ext index 20269cf87..1f090f3cd 100644 --- a/Scoliosis.s4ext +++ b/Scoliosis.s4ext @@ -25,7 +25,7 @@ homepage https://www.assembla.com/spaces/Scoliosis/wiki contributors Franklin King (PerkLab, Queen's University), Tamas Ungi (PerkLab, Queen's University) # Match category in the xml description of the module (where it shows up in Modules menu) -category Scoliosis +category Quantification # url to icon (png, size 128x128 pixels) iconurl https://www.slicer.org/slicerWiki/images/2/2b/ScoliosisLogo.png diff --git a/SegmentEditorExtraEffects.s4ext b/SegmentEditorExtraEffects.s4ext index 57415d69f..55cc41452 100644 --- a/SegmentEditorExtraEffects.s4ext +++ b/SegmentEditorExtraEffects.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/lassoan/SlicerSegmentEditorExtraEffects # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Andras Lasso (PerkLab, Queen's), Kyle MacNeil +contributors Andras Lasso (PerkLab, Queen's), Kyle MacNeil (Med-i Lab, Queen's; SPL, BWH), Andrey Fedorov (SPL, BWH) # Match category in the xml description of the module (where it shows up in Modules menu) category Segmentation diff --git a/SequenceRegistration.s4ext b/SequenceRegistration.s4ext index 6e4bb3897..380c38cb3 100644 --- a/SequenceRegistration.s4ext +++ b/SequenceRegistration.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/moselhy/SlicerSequenceRegistration # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Mohamed Moselhy (Western University), Andras Lasso (PerkLab, Queen's University) +contributors Mohamed Moselhy (Western University), Andras Lasso (PerkLab, Queen's University), Feng Su (Western University) # Match category in the xml description of the module (where it shows up in Modules menu) category Sequences diff --git a/ShapeVariationAnalyzer.s4ext b/ShapeVariationAnalyzer.s4ext index 5d3250707..8077ab0a7 100644 --- a/ShapeVariationAnalyzer.s4ext +++ b/ShapeVariationAnalyzer.s4ext @@ -22,13 +22,13 @@ homepage https://slicer.org/slicerWiki/index.php/Documentation/Nightly/Extension # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Priscille de Dumast (University of Michigan), Laura Pascal (University of Michigan) +contributors Priscille de Dumast (University of Michigan), Laura Pascal (University of Michigan), Nina Tubau (University of Michigan), Juan Carlos Prieto (University of North Carolina) # Match category in the xml description of the module (where it shows up in Modules menu) category Quantification # url to icon (png, size 128x128 pixels) -iconurl https://www.slicer.org/slicerWiki/images/3/30/ShapeVariationAnalyzer-Logo.png +iconurl https://raw.githubusercontent.com/DCBIA-OrthoLab/ShapeVariationAnalyzer/master/ShapeVariationAnalyzer.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? @@ -38,7 +38,7 @@ status description ShapeVariationAnalyzer allows the classification of 3D models, according to their morphological variations. This tool is based on a deep learning neural network. # Space separated list of urls -screenshoturls https://www.slicer.org/slicerWiki/images/f/f0/FullView_ShapeVariationAnalyzer.png https://www.slicer.org/slicerWiki/images/5/57/ShapeVariationAnalyzer-GUI.png https://www.slicer.org/slicerWiki/images/3/30/ShapeVariationAnalyzer-Logo.png +screenshoturls https://raw.githubusercontent.com/DCBIA-OrthoLab/ShapeVariationAnalyzer/master/doc/images/FullView_ShapeVariationAnalyzer.png https://raw.githubusercontent.com/DCBIA-OrthoLab/ShapeVariationAnalyzer/master/doc/images/ShapeVariationAnalyzer-GUI.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/SkeletalRepresentation.s4ext b/SkeletalRepresentation.s4ext index c80b22621..f5096086c 100644 --- a/SkeletalRepresentation.s4ext +++ b/SkeletalRepresentation.s4ext @@ -22,10 +22,10 @@ homepage https://github.com/KitwareMedical/SlicerSkeletalRepresentation/blob/mas # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Zhiyuan Liu (University of North Carolina at Chapel Hill), Junpyo Hong (University of North Carolina at Chapel Hill), Stephen M. Pizer (University of North Carolina at Chapel Hill), Jared Vicory (Kitware, Inc.), Pablo Hernandez-Cerdan (Kitware, Inc.), Beatriz Paniagua (Kitware, Inc.), Jean-Christophe Fillion-Robin (Kitware, Inc.) +contributors Zhiyuan Liu (University of North Carolina at Chapel Hill), Junpyo Hong (University of North Carolina at Chapel Hill), Stephen M. Pizer (University of North Carolina at Chapel Hill), Jared Vicory (Kitware, Inc.), Pablo Hernandez-Cerdan (Kitware, Inc.), Beatriz Paniagua (Kitware, Inc.), Jean-Christophe Fillion-Robin (Kitware, Inc.), Connor Bowley (Kitware, Inc.) # Match category in the xml description of the module (where it shows up in Modules menu) -category Topology, Skeletonization +category Shape Analysis # url to icon (png, size 128x128 pixels) iconurl https://raw.githubusercontent.com/KitwareMedical/SlicerSkeletalRepresentation/master/img/SRep.png @@ -35,10 +35,10 @@ iconurl https://raw.githubusercontent.com/KitwareMedical/SlicerSkeletalRepresent status # One line stating what the module does -description Toolkit that provides users to establish, refine, and visualize skeletal representation of an object. +description This extension allows for the creation, refinement, and viewing of Skeletal representations (s-reps). # Space separated list of urls -screenshoturls https://cdn.rawgit.com/KitwareMedical/SlicerSkeletalRepresentation/529b95bc/VisualizationScreenshot.png +screenshoturls https://raw.githubusercontent.com/KitwareMedical/SlicerSkeletalRepresentation/529b95bc6d5275297c68b7666772242abd65b897/VisualizationScreenshot.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/SlicerBatchAnonymize.s4ext b/SlicerBatchAnonymize.s4ext index 252a923cc..029e10ca0 100644 --- a/SlicerBatchAnonymize.s4ext +++ b/SlicerBatchAnonymize.s4ext @@ -28,7 +28,7 @@ contributors Hina Shah (UNC Chapel Hill), Juan Carlos Prieto (UNC, Chapel Hill) category DSCI # url to icon (png, size 128x128 pixels) -iconurl https://github.com/hina-shah/SlicerBatchAnonymize/blob/main/SlicerBatchAnonymize.png +iconurl https://raw.githubusercontent.com/hina-shah/SlicerBatchAnonymize/main/SlicerBatchAnonymize.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? @@ -38,7 +38,7 @@ status description SlicerBatchAnonymize is a Slicer extension that provides a user friendly interface to anonymize a 'batch' of DICOM images. # Space separated list of urls -screenshoturls https://github.com/hina-shah/SlicerBatchAnonymize/blob/main/Documentation/GUIPreview.png +screenshoturls https://raw.githubusercontent.com/hina-shah/SlicerBatchAnonymize/main/Documentation/GUIPreview.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/SlicerCBCTToothSegmentation.s4ext b/SlicerCBCTToothSegmentation.s4ext index 6dcd694ef..759dd93b3 100644 --- a/SlicerCBCTToothSegmentation.s4ext +++ b/SlicerCBCTToothSegmentation.s4ext @@ -22,10 +22,10 @@ homepage https://github.com/KitwareMedical/SlicerCBCTToothSegmentation # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Sadhana Ravikumar (Kitware Inc.) +contributors Sadhana Ravikumar (Kitware Inc.), Jared Vicory (Kitware Inc.), James Fishbaugh (Kitware Inc.), Beatriz Paniagua (Kitware Inc.) # Match category in the xml description of the module (where it shows up in Modules menu) -category DentalCBCTToolkit +category Segmentation # url to icon (png, size 128x128 pixels) iconurl https://raw.githubusercontent.com/KitwareMedical/SlicerCBCTToothSegmentation/master/CBCTToothSegmentation/Resources/Icons/CBCTToothSegmentation.png diff --git a/SlicerCaseIterator.s4ext b/SlicerCaseIterator.s4ext index 1ff858277..d0565039d 100644 --- a/SlicerCaseIterator.s4ext +++ b/SlicerCaseIterator.s4ext @@ -22,7 +22,7 @@ homepage https://www.slicer.org/wiki/Documentation/Nightly/Extensions/SlicerCase # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Joost van Griethuysen (NKI) +contributors Joost van Griethuysen (AVL-NKI), Christian Herz (CHOP) # Match category in the xml description of the module (where it shows up in Modules menu) category Utilities @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/JoostJM/SlicerCaseIterator/master/Slic status beta # One line stating what the module does -description Simple scripted module that allows you to iterate through a set of cases defined in a csv-file. +description Scripted module for iterating over a set of cases listed in a CSV file for segmentation or review. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/JoostJM/SlicerCaseIterator/master/SlicerCaseIterator-Screenshot.png diff --git a/SlicerCervicalSpine.s4ext b/SlicerCervicalSpine.s4ext index 1a37f49bf..96211d845 100644 --- a/SlicerCervicalSpine.s4ext +++ b/SlicerCervicalSpine.s4ext @@ -36,9 +36,7 @@ iconurl https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCe status # One line stating what the module does -description Cervical Spine is the upper part of the spine that supports the head and the neck. It contains certebrae C1-C7. This extension provides tools for cervical spine segmentation in addition to ligaments insertion and origin points detetction. There are two modules in this extension. The first provide tools for a single cervical spine, the second provide the same tools for the whole cervical spine. This extension require few seconds to complete the task. It uses a cusomised set of parameters for elastix toolbox. The extension depends on SlicerElastix extension. It downloads a few necessary files so it will take some minutes when use first time. For testing, cervical spine sample datasets can be downloaded using Slicer Data Store module. This extension can be extended easily to cover registration and segmentation of the whole spine in addition to extract more spine points and features(future works). You are welcome to contribute by optimising the code or sharing your cervical spine dataset. For questions or problems using this extension please post in the gitHub issue or in Slicer forum. For more details please read the related publications: -Ibraheem AL-Dhamari, Sabine Bauer, Eva Keller and Dietrich Paulus, (2019), Automatic Detection Of Cervical Spine Ligaments Origin And Insertion Points, EEE International Symposium on Biomedical Imaging (ISBI), Venice, Italy. -Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, (2018), Automatic Multi-modal Cervical Spine Image Atlas Segmentation Using Adaptive Stochastic Gradient Descent, Bildverarbeitung für die Medizin 2018 pp 303-308. +description The Cervical spine is the upper part of the spine that supports the head and its movements. It containes seven vertebrae C1 to C7. There are two modules in this extension (more are coming). Both modules do the same tasks but the first one for a single vertebra and the second module for the complete cervical spine.

Features:
1. Work on multi-modal images (so far it is tested against CT and MRI).
2. fast (around 5 seconds). 2. Automatic segmentation.
3. Automatic ligaments points detection.
4. Can be generalized to other parts of the spine or body. Cervical spien sample datasets are available in Slicer Data Store module.
You are welcome to contribute by correcting, enhancing, optimising the code or sharing your cervical spine dataset. For questions or problems using this extension please use gitHub issue or post in 3D Slicer forum. For more details please cite the related publications:
1. Ibraheem AL-Dhamari, Sabine Bauer, Eva Keller and Dietrich Paulus, Automatic Detection of Cervical Spine Ligaments Origin and Insertion Points. Accepted in The IEEE International Symposium on Biomedical Imaging (ISBI) 2019, Venice, Italy.
2. Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, (2018), Automatic Multi-modal Cervical Spine Image Atlas Segmentation Using Adaptive Stochastic Gradient Descent, Bildverarbeitung für die Medizin 2018 pp 303-308. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CS00.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CVT01.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CVT02.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CVT03.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CVT04.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CVT05.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CST01.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CST02.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCervicalSpine/master/Screenshots/CST03.png diff --git a/SlicerCochlea.s4ext b/SlicerCochlea.s4ext index 6f7dff013..684b52ce0 100644 --- a/SlicerCochlea.s4ext +++ b/SlicerCochlea.s4ext @@ -33,11 +33,7 @@ iconurl https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCo status # One line stating what the module does -description The cochlea is a very important part of the inner ear. It is responsible for the transfer of audio signals to the brain. There are two modules in this extension. The first module, Cochlea Registration, registers and fuses cochlea images from different modalities. The second plugin, Cochlea Segmenttaion, segment out the cochlea structure, scala tympani and other scalae (media and vestibuli) in addition to measure the length and the size of the scala tympani. Both modules required a few seconds to complete the tasks. They use a cusomised set of parameters for elastix toolbox. The extension will download elastix binaries and other necessary files so it will take some minutes when use first time. For testing, cochlea sample datasets can be downloaded using Slicer Data Store module. You are welcome to contribute by optimising the code or sharing your cochlea dataset. For questions or problems using this extension please post in the gitHub issue or in Slicer forum. For more details please read the related publications: -Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Rania Helal, Friedrich Lisseck and Roland Jacob, (2018), Automatic Cochlear Length and Volume Size Estimation, Accepted in: First International Workshop on Context-Aware Operating Theater OR 2, MICCAI 2018, Granada Spain. -Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Roland Jacob, (2018), Automatic Cochlea Multi-modal Images Segmentation Using Adaptive Stochastic Gradient Descent. In: CI2018 DC Emerging Issues in Cochlear Implantation, Washington DC, USA. (link). -Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus and Roland Jacob, (2017): Automatic Cochlea Segmentation Using Diffusion Snakes. In: 15th Symposium on Cochlear Implants in Children, CI 2017, San Francisco, USA (link). -Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Friedrich Lisseck and Roland Jacob, (2017): ACIR: automatic cochlea image registration. In: Proceedings SPIE Medical Imaging 2017: Image Processing +description The cochlea is a very important part of the inner ear. It is responsible for the transfer of audio signals to the brain.

There are two modules in this extension:


Both modules required a few seconds to complete the tasks. They use a customized set of parameters from elastix toolbox (itself using Insight Toolkit (ITK)). The extension will download elastix binaries and other necessary files so it will take some minutes when use first time. For testing, cochlea sample datasets can be downloaded using Slicer Data Store module.



You are welcome to contribute by optimising the code or sharing your cochlea dataset. For questions or problems using this extension please post in the GitHub issue tracker or on the Slicer Discussion Forum.

For more details please read the related publications:

  1. Al-Dhamari I et al. (2022) Automatic Cochlea Multimodal 3D Image Segmentation And Analysis Using Atlas-model-based Method (to be published!).

  2. Al-Dhamari I, Helal R, Morozova O, Abdelaziz T, Jacob R, et al. (2022) Automatic intra-subject registration and fusion of multimodal cochlea 3D clinical images. PLOS ONE 17(3): e0264449. https://doi.org/10.1371/journal.pone.0264449. Link

  3. Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Rania Helal, Friedrich Lisseck and Roland Jacob, (2018), Automatic Cochlear Length and Volume Size Estimation, Accepted in: First International Workshop on Context-Aware Operating Theater OR 2 MICCAI 2018, Granada Spain.

  4. Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Roland Jacob, (2018), Automatic Cochlea Multi-modal Images Segmentation Using Adaptive Stochastic Gradient Descent. In: CI2018 DC Emerging Issues in Cochlear Implantation, Washington DC, USA. (link).

  5. Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus and Roland Jacob, (2017): Automatic Cochlea Segmentation Using Diffusion Snakes. In: 15th Symposium on Cochlear Implants in Children, CI 2017, San Francisco, USA (link).

  6. Ibraheem Al-Dhamari, Sabine Bauer, Dietrich Paulus, Friedrich Lisseck and Roland Jacob, (2017): ACIR: automatic cochlea image registration. In: Proceedings SPIE Medical Imaging 2017: Image Processing # Space separated list of urls screenshoturls https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCochlea/master/Screenshots/c.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCochlea/master/Screenshots/r1.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCochlea/master/Screenshots/r2.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCochlea/master/Screenshots/s1.png https://raw.githubusercontent.com/MedicalImageAnalysisTutorials/SlicerCochlea/master/Screenshots/s2.png diff --git a/SlicerDMRI.s4ext b/SlicerDMRI.s4ext index 203d2b379..0ae8732d6 100644 --- a/SlicerDMRI.s4ext +++ b/SlicerDMRI.s4ext @@ -8,7 +8,7 @@ build_subdirectory inner-build homepage https://dmri.slicer.org/ -contributors Lauren O'Donnell, Isaiah Norton, Fan Zhang, Alex Yarmarkovich (Brigham & Women's Hospital), and others. +contributors Lauren O'Donnell (Brigham & Women's Hospital), Isaiah Norton (Brigham & Women's Hospital), Fan Zhang (Brigham & Women's Hospital), Alex Yarmarkovich (Brigham & Women's Hospital), Jon Haitz Legarreta Gorroño (Brigham & Women's Hospital) category Diffusion diff --git a/SlicerDevelopmentToolbox.s4ext b/SlicerDevelopmentToolbox.s4ext index e853cbdef..1a1c5cc9a 100644 --- a/SlicerDevelopmentToolbox.s4ext +++ b/SlicerDevelopmentToolbox.s4ext @@ -25,7 +25,7 @@ homepage https://www.slicer.org/wiki/Documentation/Nightly/Extensions/SlicerDeve contributors Christian Herz (Brigham and Women's Hospital), Andrey Fedorov (Brigham and Women's Hospital) # Match category in the xml description of the module (where it shows up in Modules menu) -category Informatics +category Developer Tools # url to icon (png, size 128x128 pixels) iconurl https://raw.githubusercontent.com/QIICR/SlicerDevelopmentToolbox/master/Resources/Icons/SlicerDevelopmentToolbox.png diff --git a/SlicerFab.s4ext b/SlicerFab.s4ext index 0e6382efc..acdcf4436 100644 --- a/SlicerFab.s4ext +++ b/SlicerFab.s4ext @@ -28,7 +28,7 @@ contributors Steve Pieper (Isomics, Inc.), Ahmed Hosney (Harvard Wyss), James We category Printing # url to icon (png, size 128x128 pixels) -iconurl https://cdn.rawgit.com/SlicerFab/SlicerFab/0f141879/slices.png +iconurl https://raw.githubusercontent.com/SlicerFab/SlicerFab/master/slices.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? @@ -38,7 +38,7 @@ status description Tools for 3D object fabrication. # Space separated list of urls -screenshoturls https://cdn.rawgit.com/SlicerFab/SlicerFab/0f141879/rendering.png +screenshoturls https://raw.githubusercontent.com/SlicerFab/SlicerFab/master/rendering.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/SlicerHeart.s4ext b/SlicerHeart.s4ext index f36a2fc55..687f6d70f 100644 --- a/SlicerHeart.s4ext +++ b/SlicerHeart.s4ext @@ -18,11 +18,11 @@ depends SlicerIGT build_subdirectory inner-build # homepage -homepage https://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/SlicerHeart +homepage https://github.com/SlicerHeart/SlicerHeart#readme # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Andras Lasso (PerkLab), Christian Herz (CHOP), Steve Pieper (Isomics), Adam Rankin (Robarts), Matthew Jolley (CHOP) +contributors Andras Lasso (PerkLab, Queen's University), Steve Pieper (Isomics), Adam Rankin (Robarts), Csaba Pinter (Pixel Medical / Ebatinca), Christian Herz (CHOP), Matthew Jolley (CHOP/UPenn) # Match category in the xml description of the module (where it shows up in Modules menu) category Cardiac diff --git a/SlicerIGT.s4ext b/SlicerIGT.s4ext index 72e24eb9c..af3615e43 100644 --- a/SlicerIGT.s4ext +++ b/SlicerIGT.s4ext @@ -22,7 +22,7 @@ homepage https://www.slicerigt.org # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Tamas Ungi (Queen's University), Junichi Tokuda (Brigham and Women's Hospital), Andras Lasso (Queen's University), Isaiah Norton (Brigham and Women's Hospital), Matthew Holden (Queen's University), Laurent Chauvin (SNR), Atsushi Yamada (SNR), Franklin King (Queen's University), Jaime Garcia-Guevara (Queen's University), Amelie Meyer (Queen's University) +contributors Tamas Ungi (Queen's University), Junichi Tokuda (Brigham and Women's Hospital), Andras Lasso (Queen's University), Isaiah Norton (Brigham and Women's Hospital), Matthew Holden (Queen's University), Laurent Chauvin (SNR), Atsushi Yamada (SNR), Franklin King (Queen's University), Jaime Garcia-Guevara (Queen's University), Amelie Meyer (Queen's University), Mikael Brudfors (UCL), Adam Rankin (Robarts Research Institute) # Match category in the xml description of the module (where it shows up in Modules menu) category IGT diff --git a/SlicerLayoutButtons.s4ext b/SlicerLayoutButtons.s4ext index 2a898631b..0493cae0b 100644 --- a/SlicerLayoutButtons.s4ext +++ b/SlicerLayoutButtons.s4ext @@ -22,10 +22,10 @@ homepage https://github.com/QIICR/SlicerLayoutButtons # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Christian Herz (BWH, SPL), Andrey Fedorov (BWH, SPL) +contributors Christian Herz (SPL, BWH), Andrey Fedorov (SPL, BWH) # Match category in the xml description of the module (where it shows up in Modules menu) -category DICOM +category Informatics # url to icon (png, size 128x128 pixels) iconurl https://raw.githubusercontent.com/QIICR/SlicerLayoutButtons/master/Resources/Icons/SlicerLayoutButtons.png @@ -35,7 +35,8 @@ iconurl https://raw.githubusercontent.com/QIICR/SlicerLayoutButtons/master/Resou status # One line stating what the module does -description This extension provides a user interface with buttons organized the same way as the Slicer slice views are aligned. The user can directly select foreground/background volume and label map to be displayed in the associated slice view. +description Simplified widget for accessing volumes and labelmaps displayed in slice views.

    This extension provides a user interface with buttons organized the same way as the Slicer slice views are aligned. The user can directly select foreground/background volume and label map to be displayed in the associated slice view. + # Space separated list of urls screenshoturls https://raw.githubusercontent.com/QIICR/SlicerLayoutButtons/master/Resources/Screenshots/overview.png diff --git a/SlicerLiver.s4ext b/SlicerLiver.s4ext index c7b7e323a..30573c8cf 100644 --- a/SlicerLiver.s4ext +++ b/SlicerLiver.s4ext @@ -12,7 +12,7 @@ scmrevision master # list dependencies # - These should be names of other modules that have .s4ext files # - The dependencies will be built first -depends SlicerVMTK SegmentEditorExtraEffects +depends SlicerVMTK SegmentEditorExtraEffects ExtraMarkups # Inner build directory (default is ".") build_subdirectory . @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Sli status beta # One line stating what the module does -description Liver vascular analysis and resection planning +description 3D Slicer extension for liver analysis and therapy planning # Space separated list of urls screenshoturls https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_01.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_02.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_03.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_04.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_05.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_06.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_07.png https://raw.githubusercontent.com/ALive-research/Slicer-Liver/master/Screenshots/Slicer-Liver_screenshot_08.png diff --git a/SlicerRT.s4ext b/SlicerRT.s4ext index 853aabb56..e8163633a 100644 --- a/SlicerRT.s4ext +++ b/SlicerRT.s4ext @@ -22,7 +22,7 @@ homepage https://slicerrt.org # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Csaba Pinter (PerkLab, Queen's University), Andras Lasso (PerkLab, Queen's University), Kevin Wang (Radiation Medicine Program, Princess Margaret Hospital, University Health Network Toronto), Greg Sharp (Massachusetts General Hospital) +contributors Csaba Pinter (PerkLab, Queen's University), Andras Lasso (PerkLab, Queen's University), Greg Sharp (Massachusetts General Hospital), Kevin Wang (Radiation Medicine Program, Princess Margaret Hospital, University Health Network Toronto) # Match category in the xml description of the module (where it shows up in Modules menu) category Radiotherapy @@ -35,7 +35,7 @@ iconurl https://www.slicer.org/slicerWiki/images/2/29/SlicerRT_Logo_3.0_128x128. status Release # One line stating what the module does -description Toolkit for radiation therapy research. Features include DICOM-RT import/export, dose volume histogram, dose accumulation, external beam planning (TPS), structure comparison and morphology, isodose line/surface generation, etc. Version 0.18.0 +description Toolkit for radiation therapy research. Features include DICOM-RT import/export, dose volume histogram, dose accumulation, external beam planning (TPS), structure comparison, isodose line/surface generation, etc. Version 0.18.0 # Space separated list of urls screenshoturls https://www.slicer.org/slicerWiki/images/8/87/SlicerRT_0.10_IsocenterShiftingEvaluation.png https://www.slicer.org/slicerWiki/images/e/ef/SlicerRT_0.11_ProstateLoaded_Beams_ThresholdedDose.png https://www.slicer.org/slicerWiki/images/4/40/SlicerRtFundingSources.png diff --git a/SlicerRadiomics.s4ext b/SlicerRadiomics.s4ext index cb37e7890..b4e941735 100644 --- a/SlicerRadiomics.s4ext +++ b/SlicerRadiomics.s4ext @@ -38,7 +38,7 @@ status beta description Radiomics extension provides a 3D Slicer interface to the pyradiomics library. pyradiomics is an open-source python package for the extraction of Radiomics features from medical imaging. # Space separated list of urls -screenshoturls https://www.slicer.org/slicerWiki/images/3/3b/SlicerRadiomics-lung.png +screenshoturls https://raw.githubusercontent.com/AIM-Harvard/SlicerRadiomics/master/resources/SlicerRadiomics-lung.png # 0 or 1: Define if the extension should be enabled after its installation. enabled 1 diff --git a/SlicerRegularizedFastMarching.s4ext b/SlicerRegularizedFastMarching.s4ext index 4af2f3412..f31c6925a 100644 --- a/SlicerRegularizedFastMarching.s4ext +++ b/SlicerRegularizedFastMarching.s4ext @@ -35,7 +35,7 @@ iconurl https://raw.githubusercontent.com/jamesobutler/SlicerRegularizedFastMarc status Tested on various images ; should work well # One line stating what the module does -description This module allows the semi-automatic segmentation of 3D medical images using regularized fast marching. +description The RegularizedFastMarching extension in Slicer facilitates efficient semi-automatic segmentation of 3D medical images through the application of regularized fast marching algorithms. Users can manually place seeds or import them from a file, and customize seed labels via CSV files. # Space separated list of urls screenshoturls https://raw.githubusercontent.com/jamesobutler/SlicerRegularizedFastMarching/main/Docs/SlicerRFM_README_Fig3.png https://raw.githubusercontent.com/jamesobutler/SlicerRegularizedFastMarching/main/Docs/SlicerRFM_README_Fig2.png https://raw.githubusercontent.com/jamesobutler/SlicerRegularizedFastMarching/main/Docs/SlicerRFM_README_Fig4.png diff --git a/SlicerTissueSegmentation.s4ext b/SlicerTissueSegmentation.s4ext index cfbabf639..ea6fa703a 100644 --- a/SlicerTissueSegmentation.s4ext +++ b/SlicerTissueSegmentation.s4ext @@ -33,7 +33,7 @@ iconurl https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentatio status # One line stating what the module does -description It gets the 2D/3D segmentation of the abdomen and the thigh from MR images +description This extension allows to generate the 2D/3D segmentation of the abdomen and the thigh from MR images. screenshoturls https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentation/main/images/module.png https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentation/main/images/inputs.png https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentation/main/images/Outputs.png https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentation/main/images/abdomen_segmenattion.png https://raw.githubusercontent.com/MarinaSandonis/SlicerTissueSegmentation/main/images/thigh_segmenattion.png diff --git a/SlicerVirtualReality.s4ext b/SlicerVirtualReality.s4ext index 24a1bf8f6..6a03d30f7 100644 --- a/SlicerVirtualReality.s4ext +++ b/SlicerVirtualReality.s4ext @@ -22,7 +22,7 @@ homepage https://github.com/KitwareMedical/SlicerVirtualReality # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) -contributors Jean-Baptiste Vimort (Kitware), Jean-Christophe Fillion-Robin (Kitware), Csaba Pinter (PerkLab, Queen's University) +contributors Jean-Baptiste Vimort (Kitware), Jean-Christophe Fillion-Robin (Kitware), Csaba Pinter (PerkLab, Queen's University), Adam Rankin (VASST Lab, Robarts Research Institute, Western University) # Match category in the xml description of the module (where it shows up in Modules menu) category Virtual Reality diff --git a/SlicerWMA.s4ext b/SlicerWMA.s4ext index ccaac62a2..d85110583 100644 --- a/SlicerWMA.s4ext +++ b/SlicerWMA.s4ext @@ -6,9 +6,9 @@ depends NA build_subdirectory inner-build -homepage https://github.com/SlicerDMRI/whitematteranalysis +homepage https://github.com/SlicerDMRI/SlicerWMA#readme -contributors Lauren O'Donnell, Fan Zhang (Brigham & Women's Hospital), and others. +contributors Lauren O'Donnell (Brigham & Women's Hospital), Fan Zhang (Brigham & Women's Hospital), Isaiah Norton (Brigham & Women's Hospital) category Libraries diff --git a/SurfaceFragmentsRegistration.s4ext b/SurfaceFragmentsRegistration.s4ext index 56b67f754..d7ac00d6c 100644 --- a/SurfaceFragmentsRegistration.s4ext +++ b/SurfaceFragmentsRegistration.s4ext @@ -20,7 +20,7 @@ build_subdirectory . # homepage homepage https://github.com/sebastianandress/Slicer-SurfaceFragmentsRegistration -contributors Sebastian Andress (LMU Munich) +contributors Sebastian Andreß (LMU Munich) # Match category in the xml description of the module (where it shows up in Modules menu) category Registration diff --git a/TCIABrowser.s4ext b/TCIABrowser.s4ext index 377fd68d1..c3ad803fd 100644 --- a/TCIABrowser.s4ext +++ b/TCIABrowser.s4ext @@ -12,7 +12,7 @@ scmrevision master # list dependencies # - These should be names of other modules that have .s4ext files # - The dependencies will be built first -depends NA +depends QuantitativeReporting SlicerRT # Inner build directory (default is ".") build_subdirectory . diff --git a/TITAN.s4ext b/TITAN.s4ext index f2994a3c8..9431399eb 100644 --- a/TITAN.s4ext +++ b/TITAN.s4ext @@ -28,7 +28,7 @@ contributors Sindhura Thirumal (Queen's University) category Analysis # url to icon (png, size 128x128 pixels) -iconurl https://raw.githubusercontent.com/sindhurathiru/TITAN/master/HypModuleCode/Resources/Icons/logo%20v2.PNG?token=AFHYJB2MGCUT2PJ35XRKCVTA5X2EU +iconurl https://raw.githubusercontent.com/sindhurathiru/SlicerTITAN/master/HypModuleCode/Resources/Icons/logo%20v2.PNG # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? diff --git a/TorchIO.s4ext b/TorchIO.s4ext index 3f1d79acb..ff015dcb5 100644 --- a/TorchIO.s4ext +++ b/TorchIO.s4ext @@ -18,7 +18,7 @@ depends PyTorch build_subdirectory . # homepage -homepage https://torchio.readthedocs.io/interfaces/index.html#d-slicer-gui +homepage https://torchio.readthedocs.io/interfaces/slicer.html # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) # For example: Jane Roe (Superware), John Doe (Lab1, Nowhere), Joe Bloggs (Noware) diff --git a/UKFTractography.s4ext b/UKFTractography.s4ext index a349eb3e0..7dd74e30f 100644 --- a/UKFTractography.s4ext +++ b/UKFTractography.s4ext @@ -36,7 +36,7 @@ iconurl https://github.com/pnlbwh/ukftractography/raw/master/UKF_icon.png status Alpha # One line stating what the module does -description A framework which uses an unscented Kalman filter for performing tractography. The development of this module was supported by NIH grants R01 MH097979 (PI Rathi), R01 MH092862 (PIs Westin and Verma), U01 NS083223 (PI Westin), R01 MH074794 (PI Westin) and P41 EB015902 (PI Kikinis). +description This extension provides a module for tracing fibers in a DWI Volume using the multiple tensor unscented Kalman Filter methology.

    The development of this module was supported by NIH grants R01 MH097979 (PI Rathi), R01 MH092862 (PIs Westin and Verma), U01 NS083223 (PI Westin), R01 MH074794 (PI Westin) and P41 EB015902 (PI Kikinis). # Space separated list of urls screenshoturls diff --git a/mpReview.s4ext b/mpReview.s4ext index 6967d9db1..a697a7f5d 100644 --- a/mpReview.s4ext +++ b/mpReview.s4ext @@ -28,14 +28,14 @@ contributors Andrey Fedorov (Brigham and Women's Hospital), Deepa Krishnaswamy ( category Informatics # url to icon (png, size 128x128 pixels) -iconurl https://github.com/SlicerProstate/mpReview/blob/master/Resources/Icons/mpReviewExtensionLogo.png +iconurl https://raw.githubusercontent.com/SlicerProstate/mpReview/master/Resources/Icons/mpReview.png # Give people an idea what to expect from this code # - Is it just a test or something you stand behind? status Work in progress # One line stating what the module does -description mpReview extension facilitates review and annotation (segmentation) of multi-parametric imaging datasets. +description The Multiparametric Image Review (mpReview) extension facilitates review and annotation (segmentation) of multi-parametric imaging datasets.

    The driving use case for the development of this module was review and segmentation of the regions of interest in prostate cancer multiparametric MRI.

    This work is done as part of the Quantitative Imaging Network (QIN) and Informatics Technology for Cancer Research (ITCR) initiatives of the National Cancer Institute, and is funded by the National Institutes of Health, National Cancer Institute through the grant U24 CA180918 (PIs Kikinis & Fedorov) and U01 CA151261 (PI Fennessy). # Space separated list of urls screenshoturls https://raw.githubusercontent.com/SlicerProstate/mpReview/master/Resources/Icons/mpReview_screenshot.PNG diff --git a/slicerPRISMRendering.s4ext b/slicerPRISMRendering.s4ext index e8a1c14ca..798fca15c 100644 --- a/slicerPRISMRendering.s4ext +++ b/slicerPRISMRendering.s4ext @@ -15,7 +15,7 @@ build_subdirectory . homepage https://githubcomets-vis-interactiveslicerprismrendering.readthedocs.io # Firstname1 Lastname1 ([SubOrg1, ]Org1), Firstname2 Lastname2 ([SubOrg2, ]Org2) -contributors Tiphaine Richard (ETS), Simon Drouin (ETS) +contributors Tiphaine Richard (ETS), Simon Drouin (ETS), Camille Hascoët (ETS) # Match category in the xml description of the module (where it shows up in Modules menu) category Rendering