Hi everybody,
I wonder of any one can tell me if there is any way to provide non-Freesurfer derived GM and WM masks (in my case generated by FSL's FAST) to afni_restproc.py ?
From reading the help and code for afni_restproc.py the answer seems to be a no, which leaves me with two options
1. patch the afni_restproc.py code to accept separate masks for GM and WM masks and process them in a manner similar to aseg.
2. Run afni_restproc.py with an aseg provided and then patch the resultant script to use my FAST masks, then pass the patched script through sed to make it work with other subjects.
Are there other options that I'm missing?
Thanks,
Colm.
