Dear Mrtrix3 developers,
I am working on tractography related to VCID subjects. I just started using mrtrix3 probabilistic tractography IFOD2 method.
I am trying to generate fiber tracks from one region to another region.
I am using CSD-MSMT algorithm along with SIFT.
I have tried different ways of generating tracks using tckgen as,
- whole brain tractography with seed region as one region with 10M tracks, unidirectional, crop at gmwmi, maxlength 250, -seeds 0 -> then do SIFT to reduce to 1M -> then do tckedit with include region as another region
- tckgen with seed as one ROI and include region as another ROI and with all the above params -> then do SIFT to reduce
- do whole brain with dynamic seeding and with same above params -> then do SIFT to reduce to 1M -> then do tckedit with include regions as both ROIs
And there are still many ways…
I am getting different results for each of the different ways. Kindly advice me on the right steps and parameters to set in order to get reliable tracks.
One more question, I generated 1M tracts with tckgen+SIFT , say with the same settings in 1 above, and extracted desired tracts using tckedit for five different target ROIs (5 different tract bundles in this case). As I compare the tract counts between 2 healthy controls. The numbers vary so much. Any insights on this behavior or any suggestions on how to analyse/find where from the differences arise.