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Home < GtractFastMarchingTracking

Module Type & Category

Type: CLI

Category: Diffusion.GTRACT

Authors, Collaborators & Contact

Author: This tool was developed by Vincent Magnotta and Greg Harris. The original code here was developed by Daisy Espino.

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

Module Description

Program title Fast Marching Tracking
Program version 4.0.0
Program documentation-url -
  • Input Image Files Parameters for specifying the diffusion tensor image set
    • Input Tensor Image Volume [--inputTensorVolume] : Required: input tensor image file name
    • Input Anisotropy Image Volume [--inputAnisotropyVolume] : Required: input anisotropy image file name
    • Input Cost Image Volume [--inputCostVolume] : Required: input vcl_cost image file name
    • Input Starting Seeds LabelMap Volume [--inputStartingSeedsLabelMapVolume] : Required: input starting seeds LabelMap image file name
    • Starting Seeds Label [--startingSeedsLabel] : Label value for Starting Seeds
  • Output Files Output file in which to store tract lines
    • Output Tract Filename [--outputTract] : Required: name of output vtkPolydata file containing tract lines and the point data collected along them.
    • Write fiber tracts in XML format [--writeXMLPolyDataFile] : Flag to make use of the XML format for vtkPolyData fiber tracts.
  • Fast Marching Tracking Parameters Input parameters controlling the Fast Marching Cost Function
    • Number of Iterations [--numberOfIterations] : Number of iterations used for the optimization
    • Seed Threshold [--seedThreshold] : Anisotropy threshold used for seed selection
    • Tracking Threshold [--trackingThreshold] : Anisotropy threshold used for fiber tracking
    • Cost Step Size [--costStepSize] : Cost image sub-voxel sampling
    • Maximum Step Size [--maximumStepSize] : Maximum step size to move when tracking
    • Minimum Step Size [--minimumStepSize] : Minimum step size to move when tracking