2008 Winter Project Week Tractography Meeting Notes

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Notes from Presentations and Discussions

Data quality, NAMIC DTI pipeline

  • Issues?
  • EPI distortion correction, ITK?
  • White matter mask? Generous?
  • Freesurfer white matter mask? Map structural segm to DTI
  • EM segmenter in Slicer white matter mask?

ROI definitions and impact on different methods

  • Force all methods to use the same ROIs?
  • Classes of ROIs?
  • For streamline methods larger ROIs than the tract itself good
  • For shortest path methods, connections stop at ROI

Methods:

  • Streamline, Slicer2 (Sonia)
  • Streamline, whole brain Slicer2 (Sonia)
  • Streamline, Fiberviewer (Casey)
  • Streamline, Gtract (Vince)


  • Shortest path (Fast Marching), volumetric (Vince)
  • Stochastic, volumetric Slicer3 (Tri)
  • Shortest path, volumetric (John)
  • Shortest path, volumetric (Tom)

Review and define metrics to compare results, which methods to compare?

Current metrics: tensor invariants (FA, trace, mode, norm), volume, length.

What is a good fiber tract?

Easier question: How similar are two methods?

Parameter settings within a method may change the results comparable to the difference between methods.


  • 12 different tracts
  • Tracts voxelized -> volumetric result from tracts
  • Missing parts of a tract, how should be penalized?
  • Statistics along the tracts, should we sum along the tract to get one measure?
  • Distributions across the tract
  • Atlas (Casey)
  • Bundle thickness: mix of radius of tract and uncertainty
  • How to define volume from connectivity map (shortest path, or stochastic)

Scientific Output