Hi Team, Can anyone please share if they have been successful in editing extending pial to the cerebellum and which method has been successful in reference to the email below.
Thanks, Sneha ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Sneha Pandya [snp2...@med.cornell.edu] Sent: Tuesday, January 27, 2015 12:03 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Which command to use if pial extends to cerebellum Hi Team, I have few of my images in which pial surface extends to the cerebellum. Please note that I have already made edits to the brainmask.mgz and have already ran following command: recon-all -autorecon-pial -subjid subj After lookin into several previous posts and freesurfer edit forum I came across following solutions but its not clear which one to use when. Can someone please shed a light to which recon command be used post making edits to brain.finalsurfs.manedit.mgz for cerebellum and pial edits to brainmask.mgz. I have also attached a screenshot for one of my case. recon-all -autorecon-pial -autorecon3 -subjid subj OR recon-all -make all -s subjid OR recon-all -all -clean-bm -s subjid Thanks, Sneha
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