Dear FSL experts,
we are running probtrackx to do tractography between two ROIs A and B. We are only interested in the direct connection between A and B, so tried to use A as seed and B as termination mask. The problem is that there are still fibers running out of B into the opposite direction of A. Also we tried to use A as seed and B as waypoint AND termination mask. Has anyone an idea of which would be the best way to obtain only those fibers that are exactly between the two ROIs? For example, if we want to map tracts between a prefrontal ROI and amygdala, we are not interested in fibers running out of the amygdala to the occipital cortex.
Also, is there a rationale of which of the two ROIs using as seed and which as termination mask?
Thanks very much for any help,
Volker
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