Atlas Tests
Add Storable Data After Scene View Test
test tractography display
RSNAQuant Tutorial
Neurosurgical Planning Tutorial Markups Self Test
Change Tracker Self Test
Fiducial Layout Switch Bug1914
Graph Cut Segment Self Test
Charting (scripted, built-in)
Cardiac Agatston Measures (scripted, bundled in Cardiac Agatston 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
CLIEvent Test
Markups Widgets Self Test
Tables Self Test
Markups In Views Self Test
Two CLIs In Parallel 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
Two CLIs In ARow Test
Colors Scalar Bar Self Test
BRAINSFit Rigid Registration Crash Issue4139
View Controllers Slice Interpolation Bug1926

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, built-in)
Change Tracker (scripted, bundled in Change Tracker extension)

Modules by name

311 modules:

ABC (cli, bundled in ABC extension)
ACPCTransform (cli, built-in)
Add Scalar Volumes (cli, built-in)
Airway Inspector (loadable, bundled in Chest Imaging Platform extension)
Airway Segmentation (scripted, bundled in Airway Segmentation extension)
Airway Segmentation CLI (cli, bundled in Airway Segmentation extension)
Angle Planes (scripted, bundled in Angle Planes Extension 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)
Breach Warning Light (scripted, bundled in Lump Nav 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 Lesion Model (scripted, bundled in Chest Imaging Platform extension)
CIP MIPViewer (scripted, bundled in Chest Imaging Platform extension)
CIP PAARatio (scripted, bundled in Chest Imaging Platform extension)
CIP Parenchyma Subtype Training (scripted, bundled in Chest Imaging Platform extension)
CIP Trachea Stent Planning (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, built-in)
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)
Dice Computation (loadable, bundled in Dice Computation extension)
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 Morphology (loadable, bundled in Margin Calculator extension)
Dose Population Histogram (loadable, bundled in Margin Calculator 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)
DSCMRIAnalysis (cli, bundled in DSCMRIAnalysis extension)
Dvh Comparison (scripted, bundled in Slicer RT extension)
DWIConvert (cli, built-in)
DWITo DTIEstimation (cli, built-in)
DWModeling (cli, bundled in Slicer Prostate extension)
Easy Clip (scripted, bundled in Easy Clip extension)
Editor (scripted, built-in)
EMSegment (loadable, built-in)
EMSegment Command Line (cli, built-in)
EMSegment Quick (loadable, built-in)
EMSegment Transform To New Format (cli, built-in)
Encode SEG (cli, bundled in Reporting extension)
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)
Execute System Command (cli, bundled in Chest Imaging Platform extension)
Extract Chest Label Map (cli, bundled in Chest Imaging Platform extension)
Extract Fissure Boundary From Lobe 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 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)
Find Patch Match (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)
Graph Cut Interactive Segmenter (loadable, bundled in Graph Cut Segment extension)
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)
Landmark Registration (scripted, built-in)
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)
Lump Nav (scripted, bundled in Lump Nav extension)
Margin Calculator (scripted, bundled in Margin Calculator 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)
Mesh Compression (cli, bundled in CBC 3D I2MConversion extension)
Mesh To Label Map (cli, bundled in Mesh To Label Map extension)
Metafile Importer (loadable, bundled in Sequences 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)
Model To Model Distance (cli, bundled in Model To Model Distance extension)
Motion Simulator (loadable, bundled in Margin Calculator extension)
Motion Simulator Double Array (loadable, bundled in Margin Calculator extension)
mp Review (scripted, bundled in mp Review extension)
mp Review Preprocessor (scripted, bundled in mp Review extension)
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)
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)
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)
Philips4d Us Dicom Patcher (scripted, bundled in Slicer Heart extension)
Pick And Paint (scripted, bundled in Pick And Paint Extension 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)
Q3DC (scripted, bundled in Q3DC 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)
Region Type Locations To ROIVolume (cli, 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)
Resample CT (cli, bundled in Chest Imaging Platform extension)
Resample DTIlog Euclidean (cli, bundled in Resample DTIlog Euclidean 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)
SEG2NRRD (cli, bundled in Reporting 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 Editor (scripted, bundled in Slicer RT extension)
Segment Lung Lobes (cli, bundled in Chest Imaging Platform extension)
Segment Morphology (loadable, bundled in Slicer RT extension)
Sequence Browser (loadable, bundled in Sequences 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)
Synthetic RTDose (scripted, bundled in Margin Calculator extension)
T1Mapping (cli, bundled in T1Mapping extension)
Tables (loadable, built-in)
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 Region And Type Indices To From Points (cli, bundled in Chest Imaging Platform extension)
Transform Fusion (loadable, bundled in Slicer IGT extension)
Transforms (loadable, built-in)
UKFTractography (cli, bundled in UKFTractography extension)
Ultrasound Snapshots (loadable, bundled in Slicer IGT extension)
Units (loadable, built-in)
Valve View (scripted, bundled in Slicer Heart extension)
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)
Viewpoint (scripted, bundled in Lump Nav extension)
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)
Window Level Effect (scripted, bundled in Window Level Effect extension)

Documentation/4.6

Modules by category

Cardiac

Cardiac MRI Toolkit

Chest Imaging Platform

Modules

Toolkit

Particles

Processing

Quantification

Registration

Segmentation

Utils

CIP

Converters

Developer Tools

DICOM Plugins

Editor Extensions

Matlab

Diffusion

Diffusion Data Conversion

Diffusion Tensor Images

Diffusion Weighted Images

Process

Quantify

Tractography

Region-based

Utilities

Editor Effects

EditorEffect

Endoscopy

Examples

Exporter

Filter

Filtering

Arithmetic

Denoising

Morphology

IGT

Informatics

Converters

Legacy

Converters

Filtering

Registration

Work in Progress

Diffusion Tensor

Test

Margin Calculator

Mesh Generation

MeshGeneration

Microscopy

MultiVolume Support

Plastimatch

Registration

Utilities

Quantification

ChangeQuantification

Radiotherapy

Registration

CMF Registration

Voxelbase Registration

Label Registration

Specialized

Segmentation

Specialized

Sequences

Shape Analysis

Slicelets

Surface Models

TestCases

Testing

IGT Tests

SlicerRT Tests

TestCases

Utilities

BRAINS

Vascular Modeling Toolkit

Wizards

Modules by name