Hi,
I downloaded a striatum mask from FSL. It is in .nii form. I am trying to use it with one of my AFNI datasets that is in MNI. But if I open the two datasets side by side the don't seem to line up. Specifically, in my MNI dataset, the part I am interested in seems to be in the striatum (caudate; confirmed by using the whereami function) but this point is completely outside the mask. I have a screenshot that can illustrate. Is there any way I can check or change the alignment?
Thanks a lot for any help!