Difference between revisions of "UKF Tractography in Slicer 4"

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==References==
 
==References==
 +
Reference for 2-tensor tractography
 +
# http://pnl.bwh.harvard.edu/pub/papers_html/MalcolmIEEETransMed10.html
 +
 +
Reference for 1-tensor and 2-tensor + free-water
 +
# C. Baumgartner, O. Michailovich, O. Pasternak, S. Bouix, J. Levitt, ME Shenton, C-F Westin, Y. Rathi,
 +
    " A unified tractography framework for comparing diffusion models on clinical scans": in Workshop
 +
  on computational diffusion MRI, 2012.

Revision as of 21:12, 4 January 2013

Home < UKF Tractography in Slicer 4

Key Investigators

  • Ryan Eckbo, BWH, HMS
  • Yogesh Rathi, BWH, HMS
  • Demian Wassermann, BWH, HMS
  • Carl-Fredrik Westin, BWH, HMS

Project Description

Objective

  • High Priority:

Have a working UKFtractography module in Slicer4 extension:

  1. Change and update the UKFTractography.xml file for receiving a .vtk file as output.
  2. Setup CTest and ensure its working.
  3. Verify that the Tractography module works on a test invivo data set
    • Verify that the following 4 models work properly. 1-Tensor, 1-Tensor with Free-water, 2-tensor, 2-tensor with free-water.
  4. Design a logo for the extension module.
  5. Document the module (including utility functions) -- make a wiki page. (Include the References to the appropriate papers and make nice snapshots).
  6. Add the 2 utility functions to the extension module and verify if they work.
  • Optional:
  1. Use the VTK library to output the data (.vtp).
  • Future Work:
  1. Move from boost to ITK multithreading.


Approach, Plan

Progress

References

Reference for 2-tensor tractography

  1. http://pnl.bwh.harvard.edu/pub/papers_html/MalcolmIEEETransMed10.html

Reference for 1-tensor and 2-tensor + free-water

  1. C. Baumgartner, O. Michailovich, O. Pasternak, S. Bouix, J. Levitt, ME Shenton, C-F Westin, Y. Rathi,
    " A unified tractography framework for comparing diffusion models on clinical scans": in Workshop
 on computational diffusion MRI, 2012.