up until now I’ve mostly used the gray matter - white matter interface for seeding my streamlines with tckgen. However, I wonder whether I might be missing many important tracts that way: More specifically, any tracts that emerge from within subcortical regions. For example, I was trying to extract those tracts that connect the right and left thalamus. Of course, doing this on the tract-image which I generated with seeds on the GM-WM interface only gives me no such (reasonable) tracts, although anatomically I know they are there. Now I’m thinking that maybe combining the GM-WM interface image with a subcortical mask as a seed image might be a way to correct for this. But I wanted to check your opinions and thoughts on this.
Thanks in advance!