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Installing Pick Tracts

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ljod edited this page Sep 5, 2014 · 9 revisions

Pick Tracts Slicer 4 Module

This module allows the user to name and group tract clusters. The output is a text file that organizes the atlas clusters into anatomical groups (white matter regions) of interest. This file is used for analysis and visualization of the regions.

Contributors

Lauren O'Donnell

Ruizhi Liao

Install Pick Tracts

  • First install Slicer 4 from http://download.slicer.org/
  • Install whitematteranalysis. The code for the Pick Tracts module is located in whitematteranalysis/Slicer4/TractCluster/PickTracts
  • Point Slicer to this directory using the following steps. ** Go to Edit->Application Settings. The Settings window will pop up. ** Choose Modules from the menu in the left part of the window. ** Under Additional Module Paths, add the path to the PickTracts directory.

Use Pick Tracts

  • Run Slicer 4.
  • Go to Examples->PickTracts in the modules list.
  • Load a mrml file (Slicer scene file) produced by whitematteranalysis clustering or atlas building.
  • To pick, label, and group tracts, follow the instructions under Help in the PickTracts module.
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