Revision as of 11:40, 9 June 2015

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Modules by category

39 categories:

BRAINS
- Label Statistics
Cardiac MRI Toolkit
Chest Imaging Platform
- Modules
- Toolkit
CIP
CMF Registration
- Voxelbase Registration
Converters
Developer Tools
- DICOM Plugins
- Editor Extensions
- Matlab
Diffusion
- Diffusion Data Conversion
- Diffusion Tensor Images
- Diffusion Weighted Images
- Fiber Analysis
- Tractography
Editor Effect
Endoscopy
Examples
Exporter
File
Filter
Filtering
- Arithmetic
- Denoising
- Morphology
IGT
Informatics
Legacy
- Converters
- Diffusion
  - Denoising
  - Diffusion Data Conversion
- Filtering
- Registration
- Work in Progress
  - Diffusion Tensor
    - Test
Mesh Generation
Mesh Generation
Microscopy
Multi Volume Support
Perk Tutor
Plastimatch
- Registration
- Utilities
Quantification
- Change Quantification
Radiotherapy
Registration
- Label Registration
- Specialized
Segmentation
- Specialized
Sequences
Shape Analysis
Slicelets
Surface Models
Testing
- IGT Tests
- Slicer RT Tests
- Test Cases
Unspecified
Utilities
- BRAINS
Vascular Modeling Toolkit
Wizards
Work in Progress
- Converters
- Informatics
  - Test Cases
XNATSlicer

BRAINS

LabelStatistics

BRAINSLabel Stats (cli, built-in)

Cardiac MRI Toolkit

CMRToolkit PVAntrum Cut (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Boolean REMOVEFilter (cli, bundled in Cardiac MRI Toolkit extension)
LASegmentation Workflow (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Registration BRAINSFit (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Automatic Left Atrial Scar (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Connected Threshold Filter (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Wizard (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Isolated Connected Filter (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Inhomogeneity Correction (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Axial Dilate (cli, bundled in Cardiac MRI Toolkit extension)
Scar Visualization (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Registration (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit LASegmentation Graph Cuts (cli, bundled in Cardiac MRI Toolkit extension)

Chest Imaging Platform

Lung Registration (scripted, bundled in Chest Imaging Platform extension)
Emphysema Subtypes (scripted, bundled in Chest Imaging Platform extension)
Interactive Lobe Segmentation (scripted, bundled in Chest Imaging Platform extension)
Parenchyma Analysis (scripted, bundled in Chest Imaging Platform extension)

Modules

CIP Body Composition (scripted, bundled in Chest Imaging Platform extension)
Picasa Snap (scripted, bundled in Chest Imaging Platform extension)
CIP Get Image (scripted, bundled in Chest Imaging Platform extension)

Toolkit

CIP

CIP Common (scripted, bundled in Chest Imaging Platform extension)

CMF Registration

Apply Matrix (cli, bundled in CMFreg extension)
Label Extraction (cli, bundled in CMFreg extension)
Label Addition (cli, bundled in CMFreg extension)
Downsize (cli, bundled in CMFreg extension)
Landmark Registration (scripted, bundled in CMFreg extension)
Surface Registration (scripted, bundled in CMFreg extension)

Voxelbase Registration

Growing (cli, bundled in CMFreg extension)
Non Growing (cli, bundled in CMFreg extension)
Mask Creation (cli, bundled in CMFreg extension)

Converters

Quad Edge Surface Mesher (cli, bundled in Slicer Prostate extension)
Crop Volume (loadable, built-in)
Orient Scalar Volume (cli, built-in)
Vector To Scalar Volume (scripted, built-in)
Create DICOMSeries (cli, built-in)
Particles Display (loadable, bundled in Chest Imaging Platform extension)
Region Type (loadable, bundled in Chest Imaging Platform extension)

Developer Tools

Cameras (loadable, built-in)
Execution Model Tour (cli, built-in)
Py Dev Remote Debug (scripted, bundled in Py Dev Remote Debug extension)
Extension Wizard (scripted, built-in)
Image Maker (cli, bundled in Image Maker extension)
Developer Tools For Extensions (scripted, bundled in Developer Tools For Extensions extension)
Event Broker
Double Arrays (loadable, built-in)

DICOM Plugins

DICOMSegmentation Plugin
DICOMSlicer Data Bundle Plugin
DICOMPETSUVPlugin
DICOMDiffusion Volume Plugin
DICOMLongitudinal PETCTPlugin
Dicom Sro Import Plugin
DICOMScalar Volume Plugin
DICOMRWVMPlugin
Dicom Rt Import Export Plugin
Multi Volume Importer Plugin

Editor Extensions

Fast Grow Cut Effect (scripted, bundled in Fast Grow Cut Effect extension)
Carrera Slice Effect (scripted, bundled in Carrera Slice extension)
PETTumor Segmentation Effect (scripted, bundled in PETTumor Segmentation extension)
Binary Watershed Effect (scripted, bundled in IASEM extension)
Double Threshold Effect (scripted, bundled in IASEM extension)

Matlab

Matlab Module Generator (loadable, bundled in Matlab Bridge extension)
Matlab Commander (cli, bundled in Matlab Bridge extension)

Diffusion

Tractography Display (loadable, built-in)
DICOM2Full Brain Tractography (scripted, built-in)

Diffusion Data Conversion

DWIConvert (cli, built-in)

Diffusion Tensor Images

Tractography Interactive Seeding (loadable, built-in)
Tractography Label Map Seeding (cli, built-in)
Diffusion Tensor Scalar Measurements (cli, built-in)
Resample DTIVolume (cli, built-in)

Diffusion Weighted Images

DWIRician LMMSEFilter (cli, built-in)
DWIJoint Rician LMMSEFilter (cli, built-in)
Finsler Backtracing (cli, bundled in Finsler Tractography extension)
Finsler Tractography (cli, bundled in Finsler Tractography extension)
DWITo DTIEstimation (cli, built-in)
Diffusion Weighted Volume Masking (cli, built-in)
Resample Scalar Vector DWIVolume (cli, built-in)

FiberAnalysis

Merge Stat With Fiber (cli, bundled in DTIAtlas Fiber Analyzer extension)
Fiber Compare (cli, bundled in DTIAtlas Fiber Analyzer extension)
dtitractstat (cli, bundled in DTIAtlas Fiber Analyzer extension)
DTIAtlas Fiber Analyzer (cli, bundled in DTIAtlas Fiber Analyzer extension)

Tractography

Fiber Bundle Label Select (cli, built-in)
Fiber Bundle To Label Map (scripted, built-in)
UKFTractography (cli, bundled in UKFTractography extension)
Fiber Tract Measurements (cli, built-in)

EditorEffect

PETTumor Segmentation (loadable, bundled in PETTumor Segmentation extension)

Endoscopy

Endoscopy (scripted, built-in)

Examples

Fast Grow Cut (loadable, bundled in Fast Grow Cut Effect extension)
Fast Grow Cut Segmenter (loadable, bundled in Carrera Slice extension)
Carrera Slice (loadable, bundled in Carrera Slice extension)

Exporter

Slicer To Kiwi Exporter (scripted, bundled in Slicer To Kiwi Exporter extension)

File

Convert VTK (cli, bundled in UKFTractography extension)

Filter

Island Removal (cli, built-in)

Filtering

Segmentation Smoothing (cli, bundled in Slicer Prostate extension)
N4ITKBias Field Correction (cli, built-in)
Image Label Combine (cli, built-in)
Voting Binary Hole Filling Image Filter (cli, built-in)
Checker Board Filter (cli, built-in)
Extract Skeleton (cli, built-in)
Simple Filters (scripted, built-in)
Threshold Scalar Volume (cli, built-in)
Histogram Matching (cli, built-in)

Arithmetic

Multiply Scalar Volumes (cli, built-in)
Add Scalar Volumes (cli, built-in)
Subtract Scalar Volumes (cli, built-in)
Mask Scalar Volume (cli, built-in)
Cast Scalar Volume (cli, built-in)

Denoising

Curvature Anisotropic Diffusion (cli, built-in)
Gradient Anisotropic Diffusion (cli, built-in)
Median Image Filter (cli, built-in)
Gaussian Blur Image Filter (cli, built-in)

Morphology

Grayscale Fill Hole Image Filter (cli, built-in)
Grayscale Grind Peak Image Filter (cli, built-in)

IGT

Collect Fiducials (loadable, bundled in Slicer IGT extension)
Transform Fusion (loadable, bundled in Slicer IGT extension)
Gyro Guide (scripted, bundled in Gyro Guide extension)
Light Weight Robot IGT (loadable, bundled in Light Weight Robot IGT extension)
Create Models (loadable, bundled in Slicer IGT extension)
Needle Finder (scripted, bundled in Needle Finder extension)
Tracker Stabilizer (loadable, bundled in Tracker Stabilizer extension)
Path Explorer (loadable, bundled in Slicer IGT extension)
Ultrasound Snapshots (loadable, bundled in Slicer IGT extension)
Breach Warning (loadable, bundled in Slicer IGT extension)
Model Registration (scripted, bundled in Slicer IGT extension)
Pivot Calibration (loadable, bundled in Slicer IGT extension)
Volume Reslice Driver (loadable, bundled in Slicer IGT extension)
Fiducial Registration Wizard (loadable, bundled in Slicer IGT extension)
Open IGTLink Remote (loadable, bundled in Slicer IGT extension)
Fiducials To Model Registration (scripted, bundled in Slicer IGT extension)
Watchdog (loadable, bundled in Slicer IGT extension)
Corner Annotation (scripted, bundled in Corner Annotation extension)
Open IGTLink IF (loadable, built-in)
i Gyne (scripted, bundled in i Gyne extension)
Plus Remote (scripted, bundled in Slicer IGT extension)
Markups To Model (loadable, bundled in Slicer IGT extension)

Informatics

TCIABrowser (scripted, bundled in TCIABrowser extension)
Data (loadable, built-in)
Units (loadable, built-in)
DICOM (scripted, built-in)
Sample Data (scripted, built-in)
Colors (loadable, built-in)
Curve Maker (scripted, bundled in Curve Maker extension)
Annotations (loadable, built-in)
Markups (loadable, built-in)
Subject Hierarchy (loadable, built-in)

Legacy

Converters

BSpline To Deformation Field (cli, built-in)

Diffusion

Denoising

DWIUnbiased Non Local Means Filter (cli, built-in)

Diffusion Data Conversion

DTIexport (cli, built-in)
DTIimport (cli, built-in)

Filtering

Otsu Threshold Image Filter (cli, built-in)
Resample Scalar Volume (cli, built-in)

Registration

Test Grid Transform Registration (cli, built-in)
Expert Automated Registration (cli, built-in)

Work in Progress

Diffusion Tensor

Test

Diffusion Tensor Test (cli, built-in)

Mesh Generation

Cleaver CLI (cli, bundled in Cleaver Extension extension)

MeshGeneration

Body Centric Cubic Mesh (cli, bundled in CBC 3D I2MConversion extension)
Mesh Compression (cli, bundled in CBC 3D I2MConversion extension)

Microscopy

IASEMImport Series (cli, bundled in IASEM extension)
IASEMImport (cli, bundled in IASEM extension)
Bin Shrink (cli, bundled in IASEM extension)
Label Object Statistics (scripted, bundled in IASEM extension)
Spacing Aware Curvature Diffusion (cli, bundled in IASEM extension)

MultiVolume Support

Multi Volume Importer (scripted, built-in)
Multi Volume Explorer (loadable, built-in)

Perk Tutor

Python Metrics Calculator (scripted, bundled in Perk Tutor extension)
Transform Recorder (loadable, bundled in Perk Tutor extension)
Perk Evaluator (loadable, bundled in Perk Tutor extension)
Workflow Segmentation (loadable, bundled in Perk Tutor extension)

Plastimatch

Dicom Sro Export (scripted, bundled in Slicer RT extension)
Plm Register (scripted, bundled in Slicer RT extension)

Registration

plastimatch slicer bspline (cli, bundled in Slicer RT extension)
plastimatch slicer landwarp (cli, bundled in Slicer RT extension)

Utilities

Plastimatch Py (loadable, bundled in Slicer RT extension)

Quantification

PETIndi C (scripted, bundled in PET-Indi C extension)
Heterogeneity CAD (scripted, bundled in Open CAD extension)
T1 Mapping (scripted, bundled in T1 Mapping extension)
Quantitative Indices CLI (cli, bundled in PET-Indi C extension)
PETStandard Uptake Value Computation (cli, built-in)
SUVFactor Calculator (cli, bundled in PETDICOMExtension extension)
Spinal Curvature Measurement (scripted, bundled in Scoliosis extension)
Quantitative Indices Tool (scripted, bundled in PET-Indi C extension)
Label Statistics (scripted, built-in)
DWModeling (cli, bundled in Slicer Prostate extension)
Pk Modeling (cli, bundled in Pk Modeling extension)
PETSUVImage Maker (cli, bundled in Longitudinal PETCT extension)
Data Probe (scripted, built-in)
d Pet Brain Quantification (scripted, bundled in Pet Spect Analysis extension)

ChangeQuantification

Intensity Difference Metric (cli, bundled in Change Tracker extension)

Radiotherapy

Beams (loadable, bundled in Slicer RT extension)
Dvh Comparison (scripted, bundled in Slicer RT extension)
Isodose (loadable, bundled in Slicer RT extension)
Dose Volume Histogram (loadable, bundled in Slicer RT extension)
Dicom Rt Import Export (loadable, bundled in Slicer RT extension)
Dose Accumulation (loadable, bundled in Slicer RT extension)
Segment Comparison (loadable, bundled in Slicer RT extension)
Planar Image (loadable, bundled in Slicer RT extension)
Dose Comparison (loadable, bundled in Slicer RT extension)
Segment Morphology (loadable, bundled in Slicer RT extension)
Dicom Sro Import (loadable, bundled in Slicer RT extension)

Registration

Transforms (loadable, built-in)
BRAINSResize (cli, built-in)
Perform Metric Test (cli, built-in)
PBNRR (cli, bundled in PBNRR extension)
BRAINSResample (cli, built-in)
BRAINSFit (cli, built-in)

Label Registration

Distance Map Based Registration (scripted, bundled in Slicer Prostate extension)

Specialized

ACPCTransform (cli, built-in)
Fiducial Registration (cli, built-in)
BRAINSDemon Warp (cli, built-in)
Reformat (loadable, built-in)
VBRAINSDemon Warp (cli, built-in)

Segmentation

EMSegment Quick (loadable, built-in)
Volume Clip With Model (scripted, bundled in Volume Clip extension)
Airway Segmentation CLI (cli, bundled in Airway Segmentation extension)
LAScar Segmenter (cli, bundled in LAScar Segmenter extension)
Airway Segmentation (scripted, bundled in Airway Segmentation extension)
Skull Stripper (cli, bundled in Skull Stripper extension)
Volume Clip With Roi (scripted, bundled in Volume Clip extension)
Segment CAD (scripted, bundled in Open CAD extension)
Swiss Skull Stripper (cli, bundled in Swiss Skull Stripper extension)
Wasp (scripted, bundled in Wasp extension)
Editor (scripted, built-in)
Simple Region Growing Segmentation (cli, built-in)
EMSegment (loadable, built-in)
Intensity Segmenter (cli, bundled in Intensity Segmenter extension)

Specialized

BRAINSROIAuto (cli, built-in)
Robust Statistics Segmenter (cli, built-in)
EMSegment Command Line (cli, built-in)

Sequences

Sequences (loadable, bundled in Sequences extension)

Shape Analysis

Mesh To Label Map (cli, bundled in Mesh To Label Map extension)

Slicelets

Gel Dosimetry Analysis (scripted, bundled in Gel Dosimetry Analysis extension)
Gel Dosimetry Analysis Algo (loadable, bundled in Gel Dosimetry Analysis extension)

Surface Models

Surface Toolbox (scripted, built-in)
Grayscale Model Maker (cli, built-in)
Model Maker (cli, built-in)
Model To Label Map (cli, built-in)
Merge Models (cli, built-in)
Probe Volume With Model (cli, built-in)
Label Map Smoothing (cli, built-in)

Testing

CLI4Test
Threshold Threading Test
Scoliosis Monitoring (scripted, bundled in Scoliosis extension)
CLIROITest (cli, built-in)
Performance Tests
Slicer MRBTest
Self Tests

IGT Tests

Breach Warning Self Test
Watchdog Self Test

SlicerRT Tests

IGRTWorkflow Self Test
Dicom Rt Import Self Test
Batch Structure Set Conversion (scripted, bundled in Slicer RT extension)

TestCases

Atlas Tests
test tractography display
RSNAQuant Tutorial
Neurosurgical Planning Tutorial Markups Self Test
Change Tracker Self Test
Fiducial Layout Switch Bug1914
Charting (scripted, built-in)
Cardiac Agatston Measures (scripted, bundled in Cardiac Agaston Measures extension)
fiber visibility crash2438
RSNAVis Tutorial
JRC2013Vis
Add Many Markups Fiducial Test
Slicer4Minute (scripted, built-in)
Crop Volume Self Test
Slice Link Logic (scripted, built-in)
Volume Rendering Scene Close (scripted, built-in)
slicer Close Crash Bug2590
Markups In Views Self Test
Subject Hierarchy Core Plugins Self Test
Subject Hierarchy Generic Self Test
Scene Performance (scripted, built-in)
Markups In Compare Viewers Self Test
scene Import2428
RSNA2012Prostate Demo
DTINot Reproducible Issue3977
Colors Scalar Bar Self Test
View Controllers Slice Interpolation Bug1926

Unspecified

BRAINSDWICleanup (cli, built-in)

Utilities

Data Store (loadable, built-in)
BRAINSStrip Rotation (cli, built-in)
EMSegment Transform To New Format (cli, built-in)

BRAINS

BRAINSTransform Convert (cli, built-in)

Vascular Modeling Toolkit

Centerline Computation (scripted, bundled in VMTK extension)
Vesselness Filtering (scripted, bundled in VMTK extension)
Level Set Segmentation (scripted, bundled in VMTK extension)

Wizards

Compare Volumes (scripted, bundled in CMFreg extension)
Change Tracker (scripted, bundled in Change Tracker extension)

Work in Progress

Longitudinal PETCT (loadable, bundled in Longitudinal PETCT extension)

Converters

Label To DICOMSEGConverter (scripted, bundled in Reporting extension)

Informatics

Reporting (loadable, bundled in Reporting extension)

TestCases

Label To DICOMSEGConverter Self Test
Reporting Self Test

XNATSlicer

Xnat Slicer (scripted, bundled in XNATSlicer extension)

Modules by name

291 modules:

ACPCTransform (cli, built-in)
Add Scalar Volumes (cli, built-in)
Airway Segmentation (scripted, bundled in Airway Segmentation extension)
Airway Segmentation CLI (cli, bundled in Airway Segmentation extension)
Annotations (loadable, built-in)
Apply Matrix (cli, bundled in CMFreg extension)
Beams (loadable, bundled in Slicer RT extension)
Bin Shrink (cli, bundled in IASEM extension)
Body Centric Cubic Mesh (cli, bundled in CBC 3D I2MConversion extension)
BRAINSDemon Warp (cli, built-in)
BRAINSDWICleanup (cli, built-in)
BRAINSFit (cli, built-in)
BRAINSLabel Stats (cli, built-in)
BRAINSResample (cli, built-in)
BRAINSResize (cli, built-in)
BRAINSROIAuto (cli, built-in)
BRAINSStrip Rotation (cli, built-in)
BRAINSTransform Convert (cli, built-in)
Breach Warning (loadable, bundled in Slicer IGT extension)
Carrera Slice (loadable, bundled in Carrera Slice extension)
Cast Scalar Volume (cli, built-in)
Centerline Computation (scripted, bundled in VMTK extension)
Change Tracker (scripted, bundled in Change Tracker extension)
Checker Board Filter (cli, built-in)
CIP Body Composition (scripted, bundled in Chest Imaging Platform extension)
CIP Common (scripted, bundled in Chest Imaging Platform extension)
CIP Get Image (scripted, bundled in Chest Imaging Platform extension)
Classify Fissure Particles (cli, bundled in Chest Imaging Platform extension)
Cleaver CLI (cli, bundled in Cleaver Extension extension)
CMRToolkit Automatic Left Atrial Scar (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Axial Dilate (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Boolean REMOVEFilter (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Connected Threshold Filter (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Inhomogeneity Correction (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Isolated Connected Filter (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit LASegmentation Graph Cuts (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit PVAntrum Cut (cli, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Registration (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Registration BRAINSFit (scripted, bundled in Cardiac MRI Toolkit extension)
CMRToolkit Wizard (scripted, bundled in Cardiac MRI Toolkit extension)
Collect Fiducials (loadable, bundled in Slicer IGT extension)
Colors (loadable, built-in)
Compare Volumes (scripted, bundled in CMFreg extension)
Compute Cross Sectional Area (cli, bundled in Chest Imaging Platform extension)
Compute Distance Map (cli, bundled in Chest Imaging Platform extension)
Compute Feature Strength (cli, bundled in Chest Imaging Platform extension)
Compute Fissure Feature Vectors (cli, bundled in Chest Imaging Platform extension)
Compute Intensity Statistics (cli, bundled in Chest Imaging Platform extension)
Convert Chest Region Chest Type To Label Map Value (cli, bundled in Chest Imaging Platform extension)
Convert Dicom (cli, bundled in Chest Imaging Platform extension)
Convert Label Map Value To Chest Region Chest Type (cli, bundled in Chest Imaging Platform extension)
Convert VTK (cli, bundled in UKFTractography extension)
Corner Annotation (scripted, bundled in Corner Annotation extension)
Create DICOMSeries (cli, built-in)
Create Models (loadable, bundled in Slicer IGT extension)
Crop Lung (cli, bundled in Chest Imaging Platform extension)
Crop Volume (loadable, built-in)
Curvature Anisotropic Diffusion (cli, built-in)
Curve Maker (scripted, bundled in Curve Maker extension)
Data (loadable, built-in)
Data Probe (scripted, built-in)
Data Store (loadable, built-in)
DICOM (scripted, built-in)
DICOM2Full Brain Tractography (scripted, built-in)
Dicom Rt Import Export (loadable, bundled in Slicer RT extension)
Dicom Sro Export (scripted, bundled in Slicer RT extension)
Dicom Sro Import (loadable, bundled in Slicer RT extension)
Diffusion Tensor Scalar Measurements (cli, built-in)
Diffusion Weighted Volume Masking (cli, built-in)
Distance Map Based Registration (scripted, bundled in Slicer Prostate extension)
Dose Accumulation (loadable, bundled in Slicer RT extension)
Dose Comparison (loadable, bundled in Slicer RT extension)
Dose Volume Histogram (loadable, bundled in Slicer RT extension)
Downsize (cli, bundled in CMFreg extension)
d Pet Brain Quantification (scripted, bundled in Pet Spect Analysis extension)
DTIAtlas Fiber Analyzer (cli, bundled in DTIAtlas Fiber Analyzer extension)
dtitractstat (cli, bundled in DTIAtlas Fiber Analyzer extension)
Dvh Comparison (scripted, bundled in Slicer RT extension)
DWIConvert (cli, built-in)
DWIJoint Rician LMMSEFilter (cli, built-in)
DWIRician LMMSEFilter (cli, built-in)
DWITo DTIEstimation (cli, built-in)
DWModeling (cli, bundled in Slicer Prostate extension)
Editor (scripted, built-in)
Emphysema Subtypes (scripted, bundled in Chest Imaging Platform extension)
EMSegment (loadable, built-in)
EMSegment Command Line (cli, built-in)
EMSegment Quick (loadable, built-in)
EMSegment Transform To New Format (cli, built-in)
Endoscopy (scripted, built-in)
Enhance Fissures In Image (cli, bundled in Chest Imaging Platform extension)
Evaluate Lung Lobe Segmentation Results (cli, bundled in Chest Imaging Platform extension)
Extract Chest Label Map (cli, bundled in Chest Imaging Platform extension)
Extract Particles From Chest Region Chest Type (cli, bundled in Chest Imaging Platform extension)
Extract Skeleton (cli, built-in)
Fast Grow Cut (loadable, bundled in Fast Grow Cut Effect extension)
Fast Grow Cut Segmenter (loadable, bundled in Carrera Slice extension)
Fiber Bundle Label Select (cli, built-in)
Fiber Bundle To Label Map (scripted, built-in)
Fiber Compare (cli, bundled in DTIAtlas Fiber Analyzer extension)
Fiber Tract Measurements (cli, built-in)
Fiducial Registration (cli, built-in)
Fiducial Registration Wizard (loadable, bundled in Slicer IGT extension)
Fiducials To Model Registration (scripted, bundled in Slicer IGT extension)
Filter Airway Particle Data (cli, bundled in Chest Imaging Platform extension)
Filter Connected Components (cli, bundled in Chest Imaging Platform extension)
Filter Fissure Particle Data (cli, bundled in Chest Imaging Platform extension)
Filter Vessel Particle Data (cli, bundled in Chest Imaging Platform extension)
Finsler Backtracing (cli, bundled in Finsler Tractography extension)
Finsler Tractography (cli, bundled in Finsler Tractography extension)
Fit Lobe Surface Models To Particle Data (cli, bundled in Chest Imaging Platform extension)
Gaussian Blur Image Filter (cli, built-in)
Gel Dosimetry Analysis (scripted, bundled in Gel Dosimetry Analysis extension)
Gel Dosimetry Analysis Algo (loadable, bundled in Gel Dosimetry Analysis extension)
Generate Atlas Convex Hull (cli, bundled in Chest Imaging Platform extension)
Generate Binary Thinning3D (cli, bundled in Chest Imaging Platform extension)
Generate Distance Map From Label Map (cli, bundled in Chest Imaging Platform extension)
Generate Image Sub Volumes (cli, bundled in Chest Imaging Platform extension)
Generate Lesion Segmentation (cli, bundled in Chest Imaging Platform extension)
Generate Lobe Surface Models (cli, bundled in Chest Imaging Platform extension)
Generate Median Filtered Image (cli, bundled in Chest Imaging Platform extension)
Generate NLMFiltered Image (cli, bundled in Chest Imaging Platform extension)
Generate Otsu Lung Cast (cli, bundled in Chest Imaging Platform extension)
Generate Overlay Images (cli, bundled in Chest Imaging Platform extension)
Generate Partial Lung Label Map (cli, bundled in Chest Imaging Platform extension)
Generate Region Histograms And Parenchyma Phenotypes (cli, bundled in Chest Imaging Platform extension)
Generate Stenciled Label Map From Particles (cli, bundled in Chest Imaging Platform extension)
Get Structures In Label Map (cli, bundled in Chest Imaging Platform extension)
Get Transformation Kappa (cli, bundled in Chest Imaging Platform extension)
Get Transformation Kappa2D (cli, bundled in Chest Imaging Platform extension)
Get Transformation Similarity Metric (cli, bundled in Chest Imaging Platform extension)
Gradient Anisotropic Diffusion (cli, built-in)
Grayscale Fill Hole Image Filter (cli, built-in)
Grayscale Grind Peak Image Filter (cli, built-in)
Grayscale Model Maker (cli, built-in)
Growing (cli, bundled in CMFreg extension)
Gyro Guide (scripted, bundled in Gyro Guide extension)
Heterogeneity CAD (scripted, bundled in Open CAD extension)
Histogram Matching (cli, built-in)
IASEMImport (cli, bundled in IASEM extension)
IASEMImport Series (cli, bundled in IASEM extension)
i Gyne (scripted, bundled in i Gyne extension)
Image Label Combine (cli, built-in)
Intensity Difference Metric (cli, bundled in Change Tracker extension)
Intensity Segmenter (cli, bundled in Intensity Segmenter extension)
Interactive Lobe Segmentation (scripted, bundled in Chest Imaging Platform extension)
Island Removal (cli, built-in)
Isodose (loadable, bundled in Slicer RT extension)
KUtil (scripted, bundled in Carrera Slice extension)
Label Addition (cli, bundled in CMFreg extension)
Label Extraction (cli, bundled in CMFreg extension)
Label Map From Region And Type Points (cli, bundled in Chest Imaging Platform extension)
Label Map Smoothing (cli, built-in)
Label Object Statistics (scripted, bundled in IASEM extension)
Label Particles By Chest Region Chest Type (cli, bundled in Chest Imaging Platform extension)
Label Statistics (scripted, built-in)
Label To DICOMSEGConverter (scripted, bundled in Reporting extension)
Landmark Registration (scripted, bundled in CMFreg extension)
LAScar Segmenter (cli, bundled in LAScar Segmenter extension)
LASegmentation Workflow (scripted, bundled in Cardiac MRI Toolkit extension)
Level Set Segmentation (scripted, bundled in VMTK extension)
Light Weight Robot IGT (loadable, bundled in Light Weight Robot IGT extension)
Longitudinal PETCT (loadable, bundled in Longitudinal PETCT extension)
Lung Registration (scripted, bundled in Chest Imaging Platform extension)
Markups (loadable, built-in)
Markups To Model (loadable, bundled in Slicer IGT extension)
Mask Creation (cli, bundled in CMFreg extension)
Mask Out Label Map Structures (cli, bundled in Chest Imaging Platform extension)
Mask Scalar Volume (cli, built-in)
Median Image Filter (cli, built-in)
Merge Chest Label Maps (cli, bundled in Chest Imaging Platform extension)
Merge Models (cli, built-in)
Merge Particle Data Sets (cli, bundled in Chest Imaging Platform extension)
Merge Stat With Fiber (cli, bundled in DTIAtlas Fiber Analyzer extension)
Mesh Compression (cli, bundled in CBC 3D I2MConversion extension)
Mesh To Label Map (cli, bundled in Mesh To Label Map extension)
Model Maker (cli, built-in)
Model Registration (scripted, bundled in Slicer IGT extension)
Models (loadable, built-in)
Model To Label Map (cli, built-in)
Multiply Scalar Volumes (cli, built-in)
Multi Volume Explorer (loadable, built-in)
Multi Volume Importer (scripted, built-in)
N4ITKBias Field Correction (cli, built-in)
Needle Finder (scripted, bundled in Needle Finder extension)
Non Growing (cli, bundled in CMFreg extension)
Open IGTLink IF (loadable, built-in)
Open IGTLink Remote (loadable, bundled in Slicer IGT extension)
Orient Scalar Volume (cli, built-in)
Parenchyma Analysis (scripted, bundled in Chest Imaging Platform extension)
Particles Display (loadable, bundled in Chest Imaging Platform extension)
Path Explorer (loadable, bundled in Slicer IGT extension)
PBNRR (cli, bundled in PBNRR extension)
Perform Metric Test (cli, built-in)
Perform Morphological (cli, bundled in Chest Imaging Platform extension)
Perk Evaluator (loadable, bundled in Perk Tutor extension)
Perturb Particles (cli, bundled in Chest Imaging Platform extension)
PETIndi C (scripted, bundled in PET-Indi C extension)
PETStandard Uptake Value Computation (cli, built-in)
PETSUVImage Maker (cli, bundled in Longitudinal PETCT extension)
PETTumor Segmentation (loadable, bundled in PETTumor Segmentation extension)
Picasa Snap (scripted, bundled in Chest Imaging Platform extension)
Pivot Calibration (loadable, bundled in Slicer IGT extension)
Pk Modeling (cli, bundled in Pk Modeling extension)
Planar Image (loadable, bundled in Slicer RT extension)
plastimatch slicer bspline (cli, bundled in Slicer RT extension)
plastimatch slicer landwarp (cli, bundled in Slicer RT extension)
Plastimatch Py (loadable, bundled in Slicer RT extension)
Plm Register (scripted, bundled in Slicer RT extension)
Plus Remote (scripted, bundled in Slicer IGT extension)
Probe Volume With Model (cli, built-in)
Python Metrics Calculator (scripted, bundled in Perk Tutor extension)
Quad Edge Surface Mesher (cli, bundled in Slicer Prostate extension)
Quality Control (cli, bundled in Chest Imaging Platform extension)
Quantitative Indices CLI (cli, bundled in PET-Indi C extension)
Quantitative Indices Tool (scripted, bundled in PET-Indi C extension)
Read Dicom Write Tags (cli, bundled in Chest Imaging Platform extension)
Read NRRDs Write VTK (cli, bundled in Chest Imaging Platform extension)
Read Vida Write CIP (cli, bundled in Chest Imaging Platform extension)
Read VTKWrite NRRDs (cli, bundled in Chest Imaging Platform extension)
Read Write Image Data (cli, bundled in Chest Imaging Platform extension)
Read Write Region And Type Points (cli, bundled in Chest Imaging Platform extension)
Reformat (loadable, built-in)
Region Type (loadable, bundled in Chest Imaging Platform extension)
Register CT (cli, bundled in Chest Imaging Platform extension)
Register Label Maps (cli, bundled in Chest Imaging Platform extension)
Register Lung Atlas (cli, bundled in Chest Imaging Platform extension)
Remap Label Map (cli, bundled in Chest Imaging Platform extension)
Remove Chest Type From Label Map Using Particles (cli, bundled in Chest Imaging Platform extension)
Remove Particles From Particles Data Set (cli, bundled in Chest Imaging Platform extension)
Reporting (loadable, bundled in Reporting extension)
Resample CT (cli, bundled in Chest Imaging Platform extension)
Resample DTIVolume (cli, built-in)
Resample Label Map (cli, bundled in Chest Imaging Platform extension)
Resample Scalar Vector DWIVolume (cli, built-in)
Rescale Label Map (cli, bundled in Chest Imaging Platform extension)
Robust Statistics Segmenter (cli, built-in)
Sample Data (scripted, built-in)
Scar Visualization (scripted, bundled in Cardiac MRI Toolkit extension)
Scene Views (loadable, built-in)
Scour Particle Data (cli, bundled in Chest Imaging Platform extension)
Segmentations (loadable, bundled in Slicer RT extension)
Segmentation Smoothing (cli, bundled in Slicer Prostate extension)
Segment CAD (scripted, bundled in Open CAD extension)
Segment Comparison (loadable, bundled in Slicer RT extension)
Segment Lung Lobes (cli, bundled in Chest Imaging Platform extension)
Segment Morphology (loadable, bundled in Slicer RT extension)
Sequences (loadable, bundled in Sequences extension)
Simple Filters (scripted, built-in)
Simple Region Growing Segmentation (cli, built-in)
Skull Stripper (cli, bundled in Skull Stripper extension)
Slicer To Kiwi Exporter (scripted, bundled in Slicer To Kiwi Exporter extension)
Spacing Aware Curvature Diffusion (cli, bundled in IASEM extension)
Spinal Curvature Measurement (scripted, bundled in Scoliosis extension)
Split Left Lung Right Lung (cli, bundled in Chest Imaging Platform extension)
Subject Hierarchy (loadable, built-in)
Subtract Scalar Volumes (cli, built-in)
Surface Registration (scripted, bundled in CMFreg extension)
Surface Toolbox (scripted, built-in)
SUVFactor Calculator (cli, bundled in PETDICOMExtension extension)
Swiss Skull Stripper (cli, bundled in Swiss Skull Stripper extension)
T1 Mapping (scripted, bundled in T1 Mapping extension)
TCIABrowser (scripted, bundled in TCIABrowser extension)
Threshold Scalar Volume (cli, built-in)
Tracker Stabilizer (loadable, bundled in Tracker Stabilizer extension)
Tractography Display (loadable, built-in)
Tractography Interactive Seeding (loadable, built-in)
Tractography Label Map Seeding (cli, built-in)
Transfer Field Data To From Point Data (cli, bundled in Chest Imaging Platform extension)
Transform Fusion (loadable, bundled in Slicer IGT extension)
Transform Recorder (loadable, bundled in Perk Tutor extension)
Transforms (loadable, built-in)
UKFTractography (cli, bundled in UKFTractography extension)
Ultrasound Snapshots (loadable, bundled in Slicer IGT extension)
Units (loadable, built-in)
VBRAINSDemon Warp (cli, built-in)
Vector To Scalar Volume (scripted, built-in)
Vesselness Filtering (scripted, bundled in VMTK extension)
Vff File Reader (loadable, bundled in Slicer RT extension)
View Controllers (loadable, built-in)
Volume Clip With Model (scripted, bundled in Volume Clip extension)
Volume Clip With Roi (scripted, bundled in Volume Clip extension)
Volume Rendering (loadable, built-in)
Volume Reslice Driver (loadable, bundled in Slicer IGT extension)
Volumes (loadable, built-in)
Voting Binary Hole Filling Image Filter (cli, built-in)
Wasp (scripted, bundled in Wasp extension)
Watchdog (loadable, bundled in Slicer IGT extension)
Welcome (loadable, built-in)
Workflow Segmentation (loadable, bundled in Perk Tutor extension)
Xnat Slicer (scripted, bundled in XNATSlicer extension)

@@ Line 2: / Line 2: @@
 <noinclude>{{:Documentation/Nightly/ModuleExtensionListing/TOC}}</noinclude>
 = Modules by category =
 categories:
 * [[#Modules_by_category_BRAINS|BRAINS]]
 ** [[#Modules_by_category_BRAINS_LabelStatistics|Label Statistics]]
 * [[#Modules_by_category_Cardiac_MRI_Toolkit|Cardiac MRI Toolkit]]
 * [[#Modules_by_category_Chest_Imaging_Platform|Chest Imaging Platform]]
+** [[#Modules_by_category_Chest_Imaging_Platform_Modules|Modules]]
+** [[#Modules_by_category_Chest_Imaging_Platform_Toolkit|Toolkit]]
+*** [[#Modules_by_category_Toolkit_Particles|Particles]]
+*** [[#Modules_by_category_Toolkit_Processing|Processing]]
+*** [[#Modules_by_category_Toolkit_Quantification|Quantification]]
+*** [[#Modules_by_category_Toolkit_Registration|Registration]]
+*** [[#Modules_by_category_Toolkit_Segmentation|Segmentation]]
+*** [[#Modules_by_category_Toolkit_Utils|Utils]]
+* [[#Modules_by_category_CIP|CIP]]
 * [[#Modules_by_category_CMF_Registration|CMF Registration]]
 ** [[#Modules_by_category_CMF_Registration_Voxelbase_Registration|Voxelbase Registration]]
@@ Line 83: / Line 92: @@
 <span id='Modules_by_category_Cardiac_MRI_Toolkit'></span>
 == Cardiac MRI Toolkit ==
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit PVAntrum Cut]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Boolean REMOVEFilter]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [[Documentation/Nightly/Modules/LASegmentationWorkflow|LASegmentation Workflow]]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
-* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration BRAINSFit]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Connected Threshold Filter]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Wizard]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Isolated Connected Filter]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Inhomogeneity Correction]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Axial Dilate]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
+* [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Registration]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit LASegmentation Graph Cuts]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 <span id='Modules_by_category_Chest_Imaging_Platform'></span>
 == Chest Imaging Platform ==
-* [http://www.chestimagingplatform.org Parenchyma Analysis]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [http://www.chestimagingplatform.org Lung Registration]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [http://www.chestimagingplatform.org Emphysema Subtypes]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [http://www.chestimagingplatform.org Interactive Lobe Segmentation]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Parenchyma Analysis]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Chest_Imaging_Platform_Modules'></span>
+=== Modules ===
+* [http://www.chestimagingplatform.org CIP Body Composition]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Picasa Snap]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org CIP Get Image]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Chest_Imaging_Platform_Toolkit'></span>
+=== Toolkit ===
+<span id='Modules_by_category_Toolkit_Particles'></span>
+==== Particles ====
+* [http://www.chestimagingplatform.org Scour Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Vessel Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remove Particles From Particles Data Set]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Merge Particle Data Sets]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Perturb Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Airway Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Transfer Field Data To From Point Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Classify Fissure Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Fissure Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Toolkit_Processing'></span>
+==== Processing ====
+* [http://www.chestimagingplatform.org Rescale Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Resample Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Median Filtered Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Label Map From Region And Type Points]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Crop Lung]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate NLMFiltered Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Fissure Feature Vectors]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Atlas Convex Hull]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Lobe Surface Models]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Connected Components]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Extract Chest Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Perform Morphological]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Enhance Fissures In Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remap Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Distance Map From Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Resample CT]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Feature Strength]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Distance Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Quality Control]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Image Sub Volumes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Toolkit_Quantification'></span>
+==== Quantification ====
+* [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Kappa]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Write Image Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Intensity Statistics]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Cross Sectional Area]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Similarity Metric]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Kappa2D]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Toolkit_Registration'></span>
+==== Registration ====
+* [http://www.chestimagingplatform.org Register Lung Atlas]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Register Label Maps]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Register CT]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Toolkit_Segmentation'></span>
+==== Segmentation ====
+* [http://www.chestimagingplatform.org Generate Otsu Lung Cast]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Segment Lung Lobes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Partial Lung Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Split Left Lung Right Lung]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Lesion Segmentation]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Binary Thinning3D]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_Toolkit_Utils'></span>
+==== Utils ====
+* [http://www.chestimagingplatform.org Convert Dicom]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read VTKWrite NRRDs]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Overlay Images]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Structures In Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Mask Out Label Map Structures]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read NRRDs Write VTK]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Write Region And Type Points]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Merge Chest Label Maps]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Vida Write CIP]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Dicom Write Tags]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+<span id='Modules_by_category_CIP'></span>
+== CIP ==
+* [http://www.chestimagingplatform.org CIP Common]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 <span id='Modules_by_category_CMF_Registration'></span>
 == CMF Registration ==
 * [[Documentation/Nightly/Extensions/CMFreg|Apply Matrix]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
-* [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
-* [[Documentation/Nightly/Extensions/CMFreg|Surface Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/Downsize|Downsize]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [[Documentation/Nightly/Modules/LandmarkRegistration|Landmark Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [[Documentation/Nightly/Extensions/CMFreg|Surface Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 <span id='Modules_by_category_CMF_Registration_Voxelbase_Registration'></span>
 === Voxelbase Registration ===
-* [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/Growing|Growing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/NonGrowing|Non Growing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 <span id='Modules_by_category_Converters'></span>
 == Converters ==
-* [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]]    <small>(scripted, built-in)</small>
+* [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
 * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/OrientScalarVolume|Orient Scalar Volume]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
+* [[Documentation/Nightly/Modules/VectorToScalarVolume|Vector To Scalar Volume]]    <small>(scripted, built-in)</small>
-* [http://www.chestimagingplatform.org Region Type]    <small>(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]]    <small>(cli, built-in)</small>
 * [http://www.chestimagingplatform.org Particles Display]    <small>(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Region Type]    <small>(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 <span id='Modules_by_category_Developer_Tools'></span>
 == Developer Tools ==
-* [[Documentation/Nightly/Modules/EventBroker|Event Broker]]
+* [[Documentation/Nightly/Modules/Cameras|Cameras]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/ExecutionModelTour|Execution Model Tour]]    <small>(cli, built-in)</small>
-* Double Arrays    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Extensions/PyDevRemoteDebug|Py Dev Remote Debug]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PyDevRemoteDebug|Py Dev Remote Debug]] extension)</small>
-* [[Documentation/Nightly/Modules/Cameras|Cameras]]    <small>(loadable, built-in)</small>
-* [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)</small>
 * [[Documentation/Nightly/Modules/ExtensionWizard|Extension Wizard]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/ImageMaker|Image Maker]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/ImageMaker|Image Maker]] extension)</small>
+* [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/DeveloperToolsForExtensions|Developer Tools For Extensions]] extension)</small>
+* [[Documentation/Nightly/Modules/EventBroker|Event Broker]]
+* Double Arrays    <small>(loadable, built-in)</small>
 <span id='Modules_by_category_Developer_Tools_DICOM_Plugins'></span>
 === DICOM Plugins ===
-* DICOMLongitudinal PETCTPlugin
+* DICOMSegmentation Plugin
-* [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]
+* DICOMSlicer Data Bundle Plugin
-* Multi Volume Importer Plugin
 * [[Documentation/Nightly/Modules/DICOMPETSUVPlugin|DICOMPETSUVPlugin]]
 * DICOMDiffusion Volume Plugin
-* Dicom Rt Import Export Plugin
+* DICOMLongitudinal PETCTPlugin
-* DICOMSegmentation Plugin
 * Dicom Sro Import Plugin
 * DICOMScalar Volume Plugin
-* DICOMSlicer Data Bundle Plugin
+* [[Documentation/Nightly/Modules/DICOMRWVMPlugin|DICOMRWVMPlugin]]
+* Dicom Rt Import Export Plugin
+* Multi Volume Importer Plugin
 <span id='Modules_by_category_Developer_Tools_Editor_Extensions'></span>
 === Editor Extensions ===
-* [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect]    <small>(scripted, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)</small>
 * [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice Effect]    <small>(scripted, bundled in [http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/CarreraSliceInteractiveSegmenter Carrera Slice] extension)</small>
+* [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)</small>
+* [[Documentation/Nightly/Extensions/IASEM|Binary Watershed Effect]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [[Documentation/Nightly/Extensions/IASEM|Double Threshold Effect]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
-* [[Documentation/Nightly/Modules/PETTumorSegmentationEffect|PETTumor Segmentation Effect]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)</small>
 <span id='Modules_by_category_Developer_Tools_Matlab'></span>
 === Matlab ===
+* [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)</small>
 * [[Documentation/Nightly/Modules/MatlabCommander|Matlab Commander]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)</small>
-* [[Documentation/Nightly/Modules/MatlabModuleGenerator|Matlab Module Generator]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/MatlabBridge|Matlab Bridge]] extension)</small>
 <span id='Modules_by_category_Diffusion'></span>
 == Diffusion ==
@@ Line 166: / Line 260: @@
 <span id='Modules_by_category_Diffusion_Diffusion_Tensor_Images'></span>
 === Diffusion Tensor Images ===
+* Tractography Interactive Seeding    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/DiffusionTensorScalarMeasurements|Diffusion Tensor Scalar Measurements]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]]    <small>(cli, built-in)</small>
-* Tractography Interactive Seeding    <small>(loadable, built-in)</small>
 <span id='Modules_by_category_Diffusion_Diffusion_Weighted_Images'></span>
 === Diffusion Weighted Images ===
 * [[Documentation/Nightly/Modules/DWIRicianLMMSEFilter|DWIRician LMMSEFilter]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/DWIJointRicianLMMSEFilter|DWIJoint Rician LMMSEFilter]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)</small>
 * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)</small>
+* [[Documentation/Nightly/Modules/DWIToDTIEstimation|DWITo DTIEstimation]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/DiffusionWeightedVolumeMasking|Diffusion Weighted Volume Masking]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]]    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Diffusion_FiberAnalysis'></span>
 === FiberAnalysis ===
+* [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|Merge Stat With Fiber]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
 * [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|Fiber Compare]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
+* [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|dtitractstat]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
 * [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
-* [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|Merge Stat With Fiber]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
-* [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|dtitractstat]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
 <span id='Modules_by_category_Diffusion_Tractography'></span>
 === Tractography ===
+* Fiber Bundle Label Select    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/FiberBundleToLabelMap|Fiber Bundle To Label Map]]    <small>(scripted, built-in)</small>
-* Fiber Bundle Label Select    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/UKFTractography|UKFTractography]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)</small>
 * Fiber Tract Measurements    <small>(cli, built-in)</small>
@@ Line 213: / Line 307: @@
 <span id='Modules_by_category_Filtering'></span>
 == Filtering ==
-* [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
 * [[Documentation/Nightly/Modules/N4ITKBiasFieldCorrection|N4ITKBias Field Correction]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/ImageLabelCombine|Image Label Combine]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/VotingBinaryHoleFillingImageFilter|Voting Binary Hole Filling Image Filter]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/SimpleFilters|Simple Filters]]    <small>(scripted, built-in)</small>
+* [[Documentation/Nightly/Modules/ThresholdScalarVolume|Threshold Scalar Volume]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/HistogramMatching|Histogram Matching]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]]    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Filtering_Arithmetic'></span>
 === Arithmetic ===
 * [[Documentation/Nightly/Modules/MultiplyScalarVolumes|Multiply Scalar Volumes]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/CastScalarVolume|Cast Scalar Volume]]    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Filtering_Denoising'></span>
 === Denoising ===
+* [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]]    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Filtering_Morphology'></span>
 === Morphology ===
@@ Line 241: / Line 335: @@
 <span id='Modules_by_category_IGT'></span>
 == IGT ==
+* [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)</small>
 * [[Documentation/Nightly/Extensions/LightWeightRobotIGT|Light Weight Robot IGT]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/LightWeightRobotIGT|Light Weight Robot IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/CollectFiducials|Collect Fiducials]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]]    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)</small>
 * [[Documentation/Nightly/Modules/TrackerStabilizer|Tracker Stabilizer]]    <small>(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/TrackerStabilizer Tracker Stabilizer] extension)</small>
 * [[Documentation/Nightly/Modules/PathExplorer|Path Explorer]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Ultrasound Snapshots]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Breach Warning]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Modules/VolumeResliceDriver|Volume Reslice Driver]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/GyroGuide|Gyro Guide]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/GyroGuide|Gyro Guide]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Watchdog]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/OpenIGTLinkRemote|Open IGTLink Remote]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)</small>
+* [[Documentation/Nightly/Modules/OpenIGTLinkIF|Open IGTLink IF]]    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Extensions/iGyne|i Gyne]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)</small>
 * [[Documentation/Nightly/Modules/PlusRemote|Plus Remote]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Extensions/iGyne|i Gyne]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/iGyne|i Gyne]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerIGT|Model Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/NeedleFinder|Needle Finder]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
-* [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 <span id='Modules_by_category_Informatics'></span>
 == Informatics ==
-* [[Documentation/Nightly/Modules/Annotations|Annotations]]    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)</small>
-* [[Documentation/Nightly/Modules/Markups|Markups]]    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Modules/Data|Data]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/Units|Units]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/DICOM|DICOM]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/SampleData|Sample Data]]    <small>(scripted, built-in)</small>
-* [[Documentation/Nightly/Modules/Data|Data]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/Colors|Colors]]    <small>(loadable, built-in)</small>
-* [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser]] extension)</small>
 * [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CurveMaker|Curve Maker]] extension)</small>
+* [[Documentation/Nightly/Modules/Annotations|Annotations]]    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Modules/Markups|Markups]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]]    <small>(loadable, built-in)</small>
 <span id='Modules_by_category_Legacy'></span>
@@ Line 287: / Line 381: @@
 <span id='Modules_by_category_Diffusion_Diffusion_Data_Conversion'></span>
 ==== Diffusion Data Conversion ====
+* DTIexport    <small>(cli, built-in)</small>
 * DTIimport    <small>(cli, built-in)</small>
-* DTIexport    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Legacy_Filtering'></span>
 === Filtering ===
@@ Line 313: / Line 407: @@
 <span id='Modules_by_category_Microscopy'></span>
 == Microscopy ==
-* [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [[Documentation/Nightly/Extensions/IASEM|IASEMImport Series]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [[Documentation/Nightly/Extensions/IASEM|IASEMImport]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
+* [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
+* [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
-* [[Documentation/Nightly/Extensions/IASEM|Bin Shrink]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 <span id='Modules_by_category_MultiVolume_Support'></span>
 == MultiVolume Support ==
+* [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/MultiVolumeExplorer|Multi Volume Explorer]]    <small>(loadable, built-in)</small>
-* [[Documentation/Nightly/Modules/MultiVolumeImporter|Multi Volume Importer]]    <small>(scripted, built-in)</small>
 <span id='Modules_by_category_Perk_Tutor'></span>
 == Perk Tutor ==
 * [[Documentation/Nightly/Extensions/PerkTutor|Python Metrics Calculator]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
-* [[Documentation/Nightly/Modules/WorkflowSegmentation|Workflow Segmentation]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
 * [[Documentation/Nightly/Modules/TransformRecorder|Transform Recorder]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
 * [[Documentation/Nightly/Modules/PerkEvaluator|Perk Evaluator]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
+* [[Documentation/Nightly/Modules/WorkflowSegmentation|Workflow Segmentation]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
 <span id='Modules_by_category_Plastimatch'></span>
 == Plastimatch ==
@@ Line 341: / Line 435: @@
 <span id='Modules_by_category_Quantification'></span>
 == Quantification ==
-* [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]]    <small>(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)</small>
+* [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
+* [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)</small>
+* [[Documentation/Nightly/Modules/T1_Mapping|T1 Mapping]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/T1_Mapping|T1 Mapping]] extension)</small>
 * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
 * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/SUVFactorCalculator|SUVFactor Calculator]]    <small>(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/PETDICOM PETDICOMExtension] extension)</small>
 * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)</small>
-* [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
-* [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)</small>
-* [[Documentation/Nightly/Modules/DWModeling|DWModeling]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
 * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
-* [[Documentation/Nightly/Modules/HeterogeneityCAD|Heterogeneity CAD]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)</small>
 * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]]    <small>(scripted, built-in)</small>
-* [[Documentation/Nightly/Modules/T1_Mapping|T1 Mapping]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/T1_Mapping|T1 Mapping]] extension)</small>
+* [[Documentation/Nightly/Modules/DWModeling|DWModeling]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
+* [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)</small>
 * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)</small>
 * [[Documentation/Nightly/Modules/DataProbe|Data Probe]]    <small>(scripted, built-in)</small>
+* [[Documentation/Nightly/Modules/dPetBrainQuantification|d Pet Brain Quantification]]    <small>(scripted, bundled in [http://gti-fing.github.io/SlicerPetSpectAnalysis Pet Spect Analysis] extension)</small>
 <span id='Modules_by_category_Quantification_ChangeQuantification'></span>
 === ChangeQuantification ===
@@ Line 363: / Line 457: @@
 * [[Documentation/Nightly/Extensions/SlicerRT|Dvh Comparison]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Modules/Isodose|Isodose]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
+* [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerRT|Dicom Rt Import Export]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Modules/DoseAccumulation|Dose Accumulation]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerRT|Segment Comparison]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
+* [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
+* [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerRT|Segment Morphology]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
-* [[Documentation/Nightly/Modules/DoseComparison|Dose Comparison]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerRT|Segment Comparison]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Modules/DicomSroImport|Dicom Sro Import]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
-* [[Documentation/Nightly/Modules/DoseVolumeHistogram|Dose Volume Histogram]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
-* [[Documentation/Nightly/Extensions/SlicerRT|Planar Image]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 <span id='Modules_by_category_Registration'></span>
 == Registration ==
-* [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/Transforms|Transforms]]    <small>(loadable, built-in)</small>
 * BRAINSResize    <small>(cli, built-in)</small>
 * Perform Metric Test    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Extensions/PBNRR|PBNRR]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)</small>
+* [[Documentation/Nightly/Modules/BRAINSResample|BRAINSResample]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/BRAINSFit|BRAINSFit]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Extensions/PBNRR|PBNRR]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)</small>
 <span id='Modules_by_category_Registration_Label_Registration'></span>
 === Label Registration ===
@@ Line 386: / Line 480: @@
 * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/FiducialRegistration|Fiducial Registration]]    <small>(cli, built-in)</small>
-* VBRAINSDemon Warp    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/BRAINSDemonWarp|BRAINSDemon Warp]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/Reformat|Reformat]]    <small>(loadable, built-in)</small>
+* VBRAINSDemon Warp    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Segmentation'></span>
 == Segmentation ==
+* EMSegment Quick    <small>(loadable, built-in)</small>
+* [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)</small>
+* [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI]    <small>(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)</small>
+* [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)</small>
 * [[Documentation/Nightly/Modules/AirwaySegmentation|Airway Segmentation]]    <small>(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)</small>
-* [[Documentation/Nightly/Modules/Editor|Editor]]    <small>(scripted, built-in)</small>
-* EMSegment Quick    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/SkullStripper|Skull Stripper]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SkullStripper|Skull Stripper]] extension)</small>
-* [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/EMSegment|EMSegment]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Roi]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)</small>
 * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)</small>
-* [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation CLI]    <small>(cli, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/AirwaySegmentation Airway Segmentation] extension)</small>
+* [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)</small>
-* [[Documentation/Nightly/Modules/LAScarSegmenter|LAScar Segmenter]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/LAScarSegmenter|LAScar Segmenter]] extension)</small>
-* [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip With Model]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/VolumeClip|Volume Clip]] extension)</small>
 * [https://github.com/Tomnl/Slicer-Wasp Wasp]    <small>(scripted, bundled in [https://github.com/Tomnl/Slicer-Wasp Wasp] extension)</small>
-* [[Documentation/Nightly/Modules/SwissSkullStripper|Swiss Skull Stripper]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SwissSkullStripper|Swiss Skull Stripper]] extension)</small>
+* [[Documentation/Nightly/Modules/Editor|Editor]]    <small>(scripted, built-in)</small>
+* [[Documentation/Nightly/Modules/SimpleRegionGrowingSegmentation|Simple Region Growing Segmentation]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/EMSegment|EMSegment]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IntensitySegmenter|Intensity Segmenter]] extension)</small>
 <span id='Modules_by_category_Segmentation_Specialized'></span>
 === Specialized ===
+* BRAINSROIAuto    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]]    <small>(cli, built-in)</small>
 * EMSegment Command Line    <small>(cli, built-in)</small>
-* BRAINSROIAuto    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Sequences'></span>
 == Sequences ==
@@ Line 422: / Line 516: @@
 <span id='Modules_by_category_Surface_Models'></span>
 == Surface Models ==
+* [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]]    <small>(scripted, built-in)</small>
+* [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]]    <small>(cli, built-in)</small>
+* [[Documentation/Nightly/Modules/ModelMaker|Model Maker]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/ModelToLabelMap|Model To Label Map]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/MergeModels|Merge Models]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/SurfaceToolbox|Surface Toolbox]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/ProbeVolumeWithModel|Probe Volume With Model]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/ModelMaker|Model Maker]]    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/GrayscaleModelMaker|Grayscale Model Maker]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]]    <small>(cli, built-in)</small>
 <span id='Modules_by_category_Testing'></span>
 == Testing ==
-* Slicer MRBTest
-* Self Tests
-* CLIROITest    <small>(cli, built-in)</small>
 * CLI4Test
 * Threshold Threading Test
 * [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis Monitoring]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)</small>
+* CLIROITest    <small>(cli, built-in)</small>
 * Performance Tests
+* Slicer MRBTest
+* Self Tests
 <span id='Modules_by_category_Testing_IGT_Tests'></span>
 === IGT Tests ===
@@ Line 444: / Line 538: @@
 <span id='Modules_by_category_Testing_SlicerRT_Tests'></span>
 === SlicerRT Tests ===
-* [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * IGRTWorkflow Self Test
 * Dicom Rt Import Self Test
+* [[Documentation/Nightly/Extensions/SlicerRT|Batch Structure Set Conversion]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 <span id='Modules_by_category_Testing_TestCases'></span>
 === TestCases ===
+* Atlas Tests
+* test tractography display
+* RSNAQuant Tutorial
+* Neurosurgical Planning Tutorial Markups Self Test
+* Change Tracker Self Test
+* Fiducial Layout Switch Bug1914
+* Charting    <small>(scripted, built-in)</small>
+* [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures]    <small>(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agaston Measures] extension)</small>
+* fiber visibility crash2438
+* RSNAVis Tutorial
+* JRC2013Vis
+* Add Many Markups Fiducial Test
+* Slicer4Minute    <small>(scripted, built-in)</small>
+* Crop Volume Self Test
 * Slice Link Logic    <small>(scripted, built-in)</small>
-* Atlas Tests
 * Volume Rendering Scene Close    <small>(scripted, built-in)</small>
-* test tractography display
 * slicer Close Crash Bug2590
+* Markups In Views Self Test
+* Subject Hierarchy Core Plugins Self Test
 * Subject Hierarchy Generic Self Test
-* Charting    <small>(scripted, built-in)</small>
 * Scene Performance    <small>(scripted, built-in)</small>
-* Neurosurgical Planning Tutorial Markups Self Test
 * Markups In Compare Viewers Self Test
-* [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agatston Measures]    <small>(scripted, bundled in [http://brainsia.github.io/CardiacAgatstonMeasures/ Cardiac Agaston Measures] extension)</small>
-* fiber visibility crash2438
 * scene Import2428
-* Fiducial Layout Switch Bug1914
-* RSNAVis Tutorial
-* JRC2013Vis
 * RSNA2012Prostate Demo
-* Add Many Markups Fiducial Test
 * DTINot Reproducible Issue3977
 * Colors Scalar Bar Self Test
-* Markups In Views Self Test
-* Change Tracker Self Test
-* Subject Hierarchy Core Plugins Self Test
-* RSNAQuant Tutorial
 * View Controllers Slice Interpolation Bug1926
-* Slicer4Minute    <small>(scripted, built-in)</small>
-* Crop Volume Self Test
 <span id='Modules_by_category_Unspecified'></span>
 == Unspecified ==
@@ Line 481: / Line 575: @@
 <span id='Modules_by_category_Utilities'></span>
 == Utilities ==
+* [[Documentation/Nightly/Modules/DataStore|Data Store]]    <small>(loadable, built-in)</small>
 * BRAINSStrip Rotation    <small>(cli, built-in)</small>
 * EMSegment Transform To New Format    <small>(cli, built-in)</small>
-* [[Documentation/Nightly/Modules/DataStore|Data Store]]    <small>(loadable, built-in)</small>
 <span id='Modules_by_category_Utilities_BRAINS'></span>
 === BRAINS ===
@@ Line 489: / Line 583: @@
 <span id='Modules_by_category_Vascular_Modeling_Toolkit'></span>
 == Vascular Modeling Toolkit ==
+* [http://slicer.vmtk.org/ Centerline Computation]    <small>(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)</small>
 * [http://slicer.vmtk.org/ Vesselness Filtering]    <small>(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)</small>
-* [http://slicer.vmtk.org/ Centerline Computation]    <small>(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)</small>
 * [http://slicer.vmtk.org/ Level Set Segmentation]    <small>(scripted, bundled in [http://slicer.vmtk.org/ VMTK] extension)</small>
 <span id='Modules_by_category_Wizards'></span>
@@ Line 507: / Line 601: @@
 <span id='Modules_by_category_Informatics_TestCases'></span>
 ==== TestCases ====
+* Label To DICOMSEGConverter Self Test
 * Reporting Self Test
-* Label To DICOMSEGConverter Self Test
 <span id='Modules_by_category_XNATSlicer'></span>
 == XNATSlicer ==
 * [[Documentation/Nightly/Extensions/XNATSlicer|Xnat Slicer]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/XNATSlicer|XNATSlicer]] extension)</small>
 = Modules by name =
 modules:
 * [[Documentation/Nightly/Modules/ACPCTransform|ACPCTransform]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/AddScalarVolumes|Add Scalar Volumes]]    <small>(cli, built-in)</small>
@@ Line 538: / Line 632: @@
 * [[Documentation/Nightly/Modules/ChangeTracker|Change Tracker]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/ChangeTracker|Change Tracker]] extension)</small>
 * [[Documentation/Nightly/Modules/CheckerBoardFilter|Checker Board Filter]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org CIP Body Composition]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org CIP Common]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org CIP Get Image]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Classify Fissure Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver CLI]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CleaverExtension|Cleaver Extension]] extension)</small>
 * [http://capulet.med.utah.edu/namic/cmrslicer/ CMRToolkit Automatic Left Atrial Scar]    <small>(cli, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
@@ Line 553: / Line 651: @@
 * [[Documentation/Nightly/Modules/Colors|Colors]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/CompareVolumes|Compare Volumes]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [http://www.chestimagingplatform.org Compute Cross Sectional Area]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Distance Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Feature Strength]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Fissure Feature Vectors]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Compute Intensity Statistics]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Convert Chest Region Chest Type To Label Map Value]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Convert Dicom]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Convert Label Map Value To Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/UKFTractography|Convert VTK]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] extension)</small>
 * [[Documentation/Nightly/Modules/CornerAnnotation|Corner Annotation]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/CornerAnnotation|Corner Annotation]] extension)</small>
 * [[Documentation/Nightly/Modules/CreateDICOMSeries|Create DICOMSeries]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Create Models]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [http://www.chestimagingplatform.org Crop Lung]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/CropVolume|Crop Volume]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/CurvatureAnisotropicDiffusion|Curvature Anisotropic Diffusion]]    <small>(cli, built-in)</small>
@@ Line 591: / Line 698: @@
 * EMSegment Transform To New Format    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/Endoscopy|Endoscopy]]    <small>(scripted, built-in)</small>
+* [http://www.chestimagingplatform.org Enhance Fissures In Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Evaluate Lung Lobe Segmentation Results]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Extract Chest Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Extract Particles From Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/ExtractSkeleton|Extract Skeleton]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/FastGrowCut|Fast Grow Cut]]    <small>(loadable, bundled in [https://www.slicer.org/slicerWiki/index.php/Documentation/4.3/Modules/FastGrowCut Fast Grow Cut Effect] extension)</small>
@@ Line 601: / Line 712: @@
 * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducial Registration Wizard]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Fiducials To Model Registration]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
+* [http://www.chestimagingplatform.org Filter Airway Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Connected Components]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Fissure Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Filter Vessel Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/FinslerBacktracing|Finsler Backtracing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)</small>
 * [[Documentation/Nightly/Modules/FinslerTractography|Finsler Tractography]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/FinslerTractography|Finsler Tractography]] extension)</small>
+* [http://www.chestimagingplatform.org Fit Lobe Surface Models To Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/GaussianBlurImageFilter|Gaussian Blur Image Filter]]    <small>(cli, built-in)</small>
 * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis]    <small>(scripted, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)</small>
 * [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis Algo]    <small>(loadable, bundled in [http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/GelDosimetry Gel Dosimetry Analysis] extension)</small>
+* [http://www.chestimagingplatform.org Generate Atlas Convex Hull]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Binary Thinning3D]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Distance Map From Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Image Sub Volumes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Lesion Segmentation]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Lobe Surface Models]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Median Filtered Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate NLMFiltered Image]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Otsu Lung Cast]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Overlay Images]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Partial Lung Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Region Histograms And Parenchyma Phenotypes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Generate Stenciled Label Map From Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Structures In Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Kappa]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Kappa2D]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Get Transformation Similarity Metric]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/GradientAnisotropicDiffusion|Gradient Anisotropic Diffusion]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/GrayscaleFillHoleImageFilter|Grayscale Fill Hole Image Filter]]    <small>(cli, built-in)</small>
@@ Line 626: / Line 759: @@
 * [[Documentation/Nightly/Modules/LabelAddition|Label Addition]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
 * [[Documentation/Nightly/Modules/LabelExtraction|Label Extraction]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [http://www.chestimagingplatform.org Label Map From Region And Type Points]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/LabelMapSmoothing|Label Map Smoothing]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Extensions/IASEM|Label Object Statistics]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
+* [http://www.chestimagingplatform.org Label Particles By Chest Region Chest Type]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/LabelStatistics|Label Statistics]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Extensions/Reporting|Label To DICOMSEGConverter]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)</small>
@@ Line 640: / Line 775: @@
 * [[Documentation/Nightly/Extensions/SlicerIGT|Markups To Model]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Modules/MaskCreation|Mask Creation]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CMFreg|CMFreg]] extension)</small>
+* [http://www.chestimagingplatform.org Mask Out Label Map Structures]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/MaskScalarVolume|Mask Scalar Volume]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/MedianImageFilter|Median Image Filter]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Merge Chest Label Maps]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/MergeModels|Merge Models]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Merge Particle Data Sets]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|Merge Stat With Fiber]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/DTIAtlasFiberAnalyzer|DTIAtlas Fiber Analyzer]] extension)</small>
 * [[Documentation/Nightly/Modules/MeshCompression|Mesh Compression]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/CBC_3D_I2MConversion|CBC 3D I2MConversion]] extension)</small>
@@ Line 664: / Line 802: @@
 * [[Documentation/Nightly/Extensions/PBNRR|PBNRR]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PBNRR|PBNRR]] extension)</small>
 * Perform Metric Test    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Perform Morphological]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/PerkEvaluator|Perk Evaluator]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
+* [http://www.chestimagingplatform.org Perturb Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/PET-IndiC|PETIndi C]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
 * [[Documentation/Nightly/Modules/PETStandardUptakeValueComputation|PETStandard Uptake Value Computation]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Extensions/LongitudinalPETCT|PETSUVImage Maker]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/LongitudinalPETCT|Longitudinal PETCT]] extension)</small>
 * [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PETTumorSegmentation|PETTumor Segmentation]] extension)</small>
+* [http://www.chestimagingplatform.org Picasa Snap]    <small>(scripted, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Pivot Calibration]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Modules/PkModeling|Pk Modeling]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PkModeling|Pk Modeling]] extension)</small>
@@ Line 680: / Line 821: @@
 * [[Documentation/Nightly/Extensions/PerkTutor|Python Metrics Calculator]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>
 * [[Documentation/Nightly/Modules/QuadEdgeSurfaceMesher|Quad Edge Surface Mesher]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
+* [http://www.chestimagingplatform.org Quality Control]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/QuantitativeIndicesCLI|Quantitative Indices CLI]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
 * [[Documentation/Nightly/Modules/QuantitativeIndicesTool|Quantitative Indices Tool]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/PET-IndiC|PET-Indi C]] extension)</small>
+* [http://www.chestimagingplatform.org Read Dicom Write Tags]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read NRRDs Write VTK]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Vida Write CIP]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read VTKWrite NRRDs]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Write Image Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Read Write Region And Type Points]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/Reformat|Reformat]]    <small>(loadable, built-in)</small>
 * [http://www.chestimagingplatform.org Region Type]    <small>(loadable, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Register CT]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Register Label Maps]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Register Lung Atlas]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remap Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remove Chest Type From Label Map Using Particles]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
+* [http://www.chestimagingplatform.org Remove Particles From Particles Data Set]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/Reporting|Reporting]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/Reporting|Reporting]] extension)</small>
+* [http://www.chestimagingplatform.org Resample CT]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/ResampleDTIVolume|Resample DTIVolume]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Resample Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/ResampleScalarVectorDWIVolume|Resample Scalar Vector DWIVolume]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Rescale Label Map]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/RobustStatisticsSegmenter|Robust Statistics Segmenter]]    <small>(cli, built-in)</small>
 * [[Documentation/Nightly/Modules/SampleData|Sample Data]]    <small>(scripted, built-in)</small>
 * [[Documentation/Nightly/Modules/ScarVisualization|Scar Visualization]]    <small>(scripted, bundled in [http://capulet.med.utah.edu/namic/cmrslicer/ Cardiac MRI Toolkit] extension)</small>
 * [[Documentation/Nightly/Modules/SceneViews|Scene Views]]    <small>(loadable, built-in)</small>
+* [http://www.chestimagingplatform.org Scour Particle Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerRT|Segmentations]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Modules/SegmentationSmoothing|Segmentation Smoothing]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/SlicerProstate|Slicer Prostate]] extension)</small>
 * [[Documentation/Nightly/Modules/SegmentCAD|Segment CAD]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/OpenCAD|Open CAD]] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerRT|Segment Comparison]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
+* [http://www.chestimagingplatform.org Segment Lung Lobes]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerRT|Segment Morphology]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerRT|Slicer RT]] extension)</small>
 * [[Documentation/Nightly/Extensions/Sequences|Sequences]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/Sequences|Sequences]] extension)</small>
@@ Line 703: / Line 862: @@
 * [[Documentation/Nightly/Extensions/IASEM|Spacing Aware Curvature Diffusion]]    <small>(cli, bundled in [[Documentation/Nightly/Extensions/IASEM|IASEM]] extension)</small>
 * [[Documentation/Nightly/Modules/SpinalCurvatureMeasurement|Spinal Curvature Measurement]]    <small>(scripted, bundled in [[Documentation/Nightly/Extensions/Scoliosis|Scoliosis]] extension)</small>
+* [http://www.chestimagingplatform.org Split Left Lung Right Lung]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Modules/SubjectHierarchy|Subject Hierarchy]]    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/SubtractScalarVolumes|Subtract Scalar Volumes]]    <small>(cli, built-in)</small>
@@ Line 716: / Line 876: @@
 * Tractography Interactive Seeding    <small>(loadable, built-in)</small>
 * [[Documentation/Nightly/Modules/TractographyLabelMapSeeding|Tractography Label Map Seeding]]    <small>(cli, built-in)</small>
+* [http://www.chestimagingplatform.org Transfer Field Data To From Point Data]    <small>(cli, bundled in [http://www.chestimagingplatform.org Chest Imaging Platform] extension)</small>
 * [[Documentation/Nightly/Extensions/SlicerIGT|Transform Fusion]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/SlicerIGT|Slicer IGT]] extension)</small>
 * [[Documentation/Nightly/Modules/TransformRecorder|Transform Recorder]]    <small>(loadable, bundled in [[Documentation/Nightly/Extensions/PerkTutor|Perk Tutor]] extension)</small>

Difference between revisions of "Documentation/Nightly/ModuleExtensionListing"

Revision as of 11:40, 9 June 2015

Modules by category

BRAINS

LabelStatistics

Cardiac MRI Toolkit

Chest Imaging Platform

Modules

Toolkit

Particles

Processing

Quantification

Registration

Segmentation

Utils

CIP

CMF Registration

Voxelbase Registration

Converters

Developer Tools

DICOM Plugins

Editor Extensions

Matlab

Diffusion

Diffusion Data Conversion

Diffusion Tensor Images

Diffusion Weighted Images

FiberAnalysis

Tractography

EditorEffect

Endoscopy

Examples

Exporter

File

Filter

Filtering

Arithmetic

Denoising

Morphology

IGT

Informatics

Legacy

Converters

Diffusion

Denoising

Diffusion Data Conversion

Filtering

Registration

Work in Progress

Diffusion Tensor

Test

Mesh Generation

MeshGeneration

Microscopy

MultiVolume Support

Perk Tutor

Plastimatch

Registration

Utilities

Quantification

ChangeQuantification

Radiotherapy

Registration

Label Registration

Specialized

Segmentation

Specialized

Sequences

Shape Analysis

Slicelets

Surface Models

Testing

IGT Tests

SlicerRT Tests

TestCases

Unspecified

Utilities

BRAINS

Vascular Modeling Toolkit

Wizards