Hi AFNI experts!
I wonder, if anyone out there knows an easy solution for my little problem:
I have an extracted brain in BRIK format, which has already been nudged with 3dAnatnudge and finally has been perfectly nudged with the nudge plug-in of AFNI.
Next I would like to move this brain in TT-space.
However, I would feel better, if I could go through the whole TT-procedure with the unscalped BRIK image, because sometimes I am missing a little bit of grey matter at the edges and marking the most left/right/superior point etc and therefore it would be more accurate doing this on the unscalped brain.
I think, I have to re-apply the rotations and translations done to the extracted brain to the unscalped image. After I put the unscalped brain into TT-space, I could warp the coordinates to the nudged brain.
But HOW should I script that?
Any suggestions and comments are warmly wellcome!
Thanks,
Lukas
