Hi Paul,
Excellent, that makes sense. I was wondering if you would mind giving me some additional guidance on visualizing the tracts in SUMA.?
So I made a tract from the basolateral amygdala to the ventromedial prefrontal cortex using full probabilistic tractography.
Would I be looking at o.PR_000.niml.dset or the o.PR_000_PAIRMAP.niml.lt? Also I assume that an anatomical image (spgr) for the subject would serve as my underlay? Although this is in original anatomical space and the tracts will be in diffusion space.
Any help you can give me to start to look at this tract would be most appreciated. Also, do you typically do additionally thresholding after tracking to get rid of any additional extraneous tracts?
Also I see in the o.PR_000.grid, there is an FA value for ROI1 and ROI2. However, I am interested in the FA value for the path that connects ROI1 and ROI2. How does one obtain that?
Sorry if I am asking dumb questions, I am brand new to DTI and SUMA.
Thanks,
Emily