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3d4dimageconversion

Converts a 3D vector ITK image into a 4D ITK image

3dmetrictools

3DMeshMetric is a visualization tool that computes and displays surface-to-surface distance between two triangle meshes using user-specified uniform sampling (based on the source code of MeshValmet: http://www.nitrc.org/projects/meshvalmet).

abc

ABC (Atlas Based Classification) is a comprehensive processing pipeline developed and used at University of North Carolina and University of Utah for brain MRIs

arctic

ARCTIC (Automatic Regional Cortical ThICkness) is an end-to-end application developped at UNC-Chapel Hill allowing individual regional analysis of cortical thickness

atlaswerks

A temporary location to help facilitate cleaning up this code again. AtlasWerks is an open-source (BSD license) software package for medical image atlas generation. The AtlasWerks software package provides efficient CPU and GPU implementations of nonlinear deformation algorithms based on the Large Deformation Diffeomorphic Metric Mapping (LDMM) framework for single machines and clusters, command line frontends for atlas and deformation generation, and a number of utility programs for handling 3D medical image data.

auto_eacsf

A tool for brain extra-axial cerebrospinal fluid extraction from MRI

autoseg

AutoSeg is a C++ based application developed at UNC-NIRAL that performs automatic brain tissue classification and structural segmentation, including multi-atlas segmentation

autotract

Automatic Tractography Tool

batchmake

Clone and fork of git://batchmake.org/BatchMake.git

brainkeychainautomation

brainstools

A suite of tools for medical image processing focused on brain analysis

breezestylesheets

Breeze/BreezeDark-like Qt StyleSheets

calatk_parameterstest

Scripts and parameter sets to test CalaTK

ccseg

Corpus Callosum Segmentation Tool CCSeg is an open-source C++-based application developed at UNC-Chapel Hill that allows automatic as well as user-interactive segmentation of the Corpus Callosum

civility

Cloud Based Interactive Visualization of Tractography Brain Connectome (CIVILITY) is an interactive visualization tool of brain connectome in the web.

clapack

Github repository for CLAPACK (fork of CLAPACK 3.2.1 patched for our needs)

clusterpost

Post jobs to a computing grid and store the results in a couch database local or remote

combinedwis

Combine Diffusion Weighted Images (NRRD) with potentially different b-values

continuity

cost

This tool implements the method from the paper "Efficient, Graph-based White Matter Connectivity from Orientation Distribution Functions via Multi-directional Graph Propagation"

curvecompare

Compares two fibers file with different metrics: euclidean distance (closest points), tangent metric, curvature metric, overlap, probabilistic overlap

dcm_to_bids

Converts a dicom directory to bids format

dti-reg

DTI-Reg is an open-source C++ application that performs pair-wise DTI registration, using scalar FA map to drive the registration

dtiatlasbuilder

This tool creates an Atlas image as an average of several DTI images that will be registered

dtifibertractstatistics

This is a software which allows the user to study the behavior of water diffusion (using DTI data) along the length of the white matter fiber-tracts

dtiplayground

An integrated framework for DWI Image QC and processing

dtiplaygroundlab

DTIPlayground Web UI Project

dtiplaygroundnative

DTIPlayground Native

dtiplaygroundtools

DTIPlayground required toolset build script

dtiprep

DTIPrep performs a "Study-specific Protocol" based automatic pipeline for DWI/DTI quality control and preparation