Tractography Coding Assignment¶
by Lawrence Binding and Ellie Thompson
Estimated Time
Around 2 hours to code
Similar to the DTI estimation coding assignment, the image below will take you to your respective groups colab page and you will require these files ( link here ). While the answers have been hidden and we have provided space for you to have a go at coding this yourself, it is a very difficult task. As such, the main coding assignment will be to slightly alter the outcome of the code by:
Seed streamlines throughout the white matter, rather than in the ROI mask
Place a lower threshold on the streamlines, meaning that only streamlines greater than the threshold length are saved. This should help to remove spurious streamlines
Place an angular threshold on the streamlines, meaning that is streamlines follow a curve greater than the angular threshold are not saved. The default maximum angle used by deterministic algorithms in MRtrix3 is 60 degrees.
