You can create a binary ribbon mask with

mri_binarize --i ribbon.mgz --match 3 --match 42 --o ribbon.mask.mgz

doug

Andrew Ward wrote:

Hi all,

This may be a bit elementary, but I have been unable to figure it out. I would like to create a structurally defined binary gray matter mask for a series of subjects. I was under the impression that this was already done during recon-all with the creation of three files: ?h.ribbon.mgz and ribbon.mgz. I assumed that ribbon.mgz would be the average of ?h.ribbon.mgz, but upon looking at it in tksurfer it does not appear to be. Is there a way to average the ?h.ribbon.mgz files, or is this mask created somewhere else already?

Thanks,

Andy