I read the very helpful page under “Concepts” and “Motivation for afdconnectivity”, and related discussion posts. I wanted to clarify - if I have diffusion data for 2 timepoints (before and after a surgical intervention), but unfortunately no EPI distortion correction images, and wanted to quantify changes in a few particular pathways, what is the best method? My understanding is I could either:
- Follow the standard preprocessing pipeline, generate a whole brain tractogram for each subject/each timepoint, apply SIFT, tckedit to get specific tracts, and then compare streamline counts.
- Follow the standard preprocessing pipeline, generate whole brain tractogram for each subject/each timepoint, tckedit to get tracts of interest, then use afdconnectivity with the -wbft
I’m wondering if these two approaches are correct, and if one is much more valid than the other?
Thanks a lot for your help!