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Go to the FiberViewerLight webpage |
Fiber ViewerLight is an open-source C++ application to analyze fiber bundles. It provides:
 Several methods for clustering
3D fibers visualization
3D plane selection
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| DTI Fiber Tract Statistics |
Go to the DTI Fiber Tract Statistics webpage |
DTIAtlasFiberAnalyzer is an open-source C++ application that applies an atlas fiber to all individual subjects from a dataset, extracts fiber profiles, gathers and plots related information (FA map...)
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| DTI-Reg |
Go to the DTI-Reg webpage |
DTI-Reg is an open-source C++ application that performs pair-wise DTI registration, using scalar FA map to drive the registration.
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| Tractograpy with unscented Kalman Filter |
Go to the UKF webpage |
We present a framework which uses an unscented Kalman filter to perform tractography. At each point on the fiber the most consistent direction is found as a mixture of previous estimates and of the local model. Currently it is possible to tract fibers using two different 1-, 2-, or 3-tensor methods.
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| DTI Process Toolkit |
Go to the DTI Process webpage |
DTIProcess is a DTI processing and analysis toolkit developed in UNC and University of Utah. Tools in this toolkit include dtiestim, dtiprocess, dtiaverage, fibertrack, fiberprocess...
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Go to the CCSeg webpage |
CCSeg is an open-source C++-based application that allows automatic as well as user-interactive segmentation of the Corpus Callosum.
Via a Qt-based graphical user interface, CCSeg also performs semi-automatic segmentation.
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Go to the NIRAL Utilities webpage |
NIRAL Utilities are open-source C++ based command line applications that allow image analysis and processing using ITK or VTK libraries |
 | go to the ShapeWorks webpage |
ShapeWorks software is an open-source distribution (initially developped by the SCI Institute) of a new method for constructing compact statistical point-based models of ensembles of similar shapes that does not rely on any specific surface parameterization:
Data preprocessing
Group-wise particle-based shape correspondence
Data visualization |
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Go to the DTIPrep webpage |
DTIPrep performs a "Study-specific Protocol" based automatic pipeline for DWI/DTI quality control and preparation:
Image/diffusion information check
Interlace-wise and gradient-wise intensity and motion check
Head motion and Eddy current artifact correction
DTI computation |
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Go to the AutoSeg webpage |
AutoSeg is an end-to-end application that performs automatic brain tissue classification and structural segmentation:
Atlas-based EM tissue segmentation
Atlas-based subcortical structure segmentation and lobar parcellation
Regional histogram analysis |
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Go to the GAMBIT webpage |
GAMBIT is an end-to-end application allowing Group-wise Automatic Mesh-Based analysis of cortIcal Thickness as well as other surface area measurements:
Voxel-based cortical thickness
White matter cortical surface creation and inflation
Group-wise shape correspondence using ShapeWorks |
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Go to the ARCTIC webpage |
ARCTIC (Automatic Regional Cortical ThICkness) is a cross-platform end-to-end application allowing individual analysis of cortical thickness. It can be run within Slicer3 as an external module or directly as a command line:
Brain tissue segmentation
Lobar cortical thickness analysis
White and gray matter mesh creation |
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NITRC SPHARM PDM page
Local SPHARM shape analysis page |
The SPHARM shape analysis toolset is used for doing local statistical shape analysis. ITK based. |
