GtractAnisotropyMap

Anisotropy Map

Anisotropy Map

User Interface

Output

Caption

General Information

Module Type & Category

Type: CLI

Category: Diffusion.GTRACT

Authors, Collaborators & Contact

Author: This tool was developed by Vincent Magnotta and Greg Harris.

Contributors:

Contact: name, email

Module Description

Program title	Anisotropy Map
Program description	This program will generate a scalar map of anisotropy, given a tensor representation. Anisotropy images are used for fiber tracking, but the anisotropy scalars are not defined along the path. Instead, the tensor representation is included as point data allowing all of these metrics to be computed using only the fiber tract point data. The images can be saved in any ITK supported format, but it is suggested that you use an image format that supports the definition of the image origin. This includes NRRD, NifTI, and Meta formats. These images can also be used for scalar analysis including regional anisotropy measures or VBM style analysis.
Program version	4.0.0
Program documentation-url	-

Usage

Use Cases, Examples

This module is especially appropriate for these use cases:

• Use Case 1:
• Use Case 2:

Examples of the module in use:

• Example 1:
• Example 2:

Tutorials

• Tutorial 1
  • Data Set 1

Quick Tour of Features and Use

A list panels in the interface, their features, what they mean, and how to use them.

Input Parameters Input Tensor Image Volume [--inputTensorVolume] : Required: input file containing the diffusion tensor image Type Code for Anisotropy Map [--anisotropyType] : Anisotropy Mapping Type: ADC, FA, RA, VR, AD, RD, LI Default value: ADC Output File Output Anisotropy Image Volume [--outputVolume] : Required: name of output NRRD file containing the selected kind of anisotropy scalar.

User Interface

Development

Notes from the Developer(s)

Algorithms used, library classes depended upon, use cases, etc.

Dependencies

Other modules or packages that are required for this module's use.

Tests

On the Dashboard, these tests verify that the module is working on various platforms:

• MyModuleTest1 MyModuleTest1.cxx
• MyModuleTest2 MyModuleTest2.cxx

Known bugs

Links to known bugs in the Slicer3 bug tracker

• Bug 000: description

Usability issues

Follow this link to the Slicer3 bug tracker. Please select the usability issue category when browsing or contributing.

Source code & documentation

Links to the module's source code:

Source code:

• file.cxx
• file.h

Doxygen documentation:

• class1

More Information

Acknowledgment

Funding for this version of the GTRACT program was provided by NIH/NINDS R01NS050568-01A2S1

References

Publications related to this module go here. Links to pdfs would be useful.