I've gathered from the list that, to get tracts that go only from ROI A to ROI B, and stop at ROI B, I should use ROI B as a waypoint and termination mask. When I do this, seeding in the cortex with a small thalamic mask as the waypoint\termination mask I still get some wispy tracts that seem to not really go anywhere. in addition, the tract going to the thalamus goes past the thalamus and into the temporal lobe. I can't tell it it is curving and coming back up to terminate in the thalamus. Is this normal for probtrackX or can I do something (besides play with the threshold) to increase the specificity of the tract?
Thanks!
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