Try mri_binarize --i aparc+aseg.mgz --wm --o wm.mask.mgz

On 08/10/2016 07:21 AM, John Anderson wrote:

Dear FS experts, I need to crate a mask for whole white matter in the brain including the cerebellum. Also I need a mask for the whoe gray matter. Can I binzarize ( i.e. use mri_binarize) and input the files: *wm.seg.mgz* from the output of recon-all to create a a mask for global white matter and the file *ribbon.mgz* the output of recon-all to create a a mask for global gray matter Thank you for any advice! Bests, John Anderson

Senior Research Associate Psychological and Brain Sciences Dept. Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755 Phone: +1 (603) 646-9834 Fax: +1 (603) 646-1419

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer