Hi Leslie
> I want to confirm a connection between two specific ROIs. First, I used one as the seed mask and the other as a waypoint mask. That was fine except, of course, the track extends beyond the second mask. To correct for this I used the same seed mask and waypoint mask, but in addition I used the waypoint mask as a termination mask, too. The results were very similar to the first (not exact) and the track, again, continued beyond the 2nd ROI. What could I be doing wrong??
That does not seem likely. How can you be sure that the tracts are extending beyond the second ROI rather than looping around and getting to the stop mask from "behind"?
> I am also finding that two different waypoint masks that are near but not overlapping run separately with the same seed tend to show the same fiber tracking. Does this speak to the space transformation where masks might expand to overlap (though I find that hard to believe since it is happening with caudate and putamen, for example, and I looked at all masks in standard space ...unless it is happening in diff space)? ...or could I just be running it wrong?
This is possible. Caudate and Putamen may share a lot of their streamline trajectories given their proximity. This is where it becomes useful to use prior masks.
Saad.
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