Apologies for the repost - this may have got lost in the mail blackout ...<br><br>Dear Freesurfer Experts, <br>

<br>

I have read the advice on the wiki regarding what to do when pial 
surfaces extend into the cerebellum.  I had a few questions to clairfy 
things:<br>

<br>

1) If I have made other (non-cerebellar) edits to the brainmask.mgz, and added control points can I simply do <br>

<br>

cp brainmask.mgz brain.finalsurfs.manedit.mgz <br>

edit the cerebellum voxels out on the brain.finalsurfs.manedit.mgz <br>

run recon-all -autorecon2-cp -autorecon3 -subjid name <br>

<br>

Will this then apply non-cerebellar and cerebellar edits (as well as control points) and give appropriate segmentations ?<br>

<br>

OR <br>

<br>

Do I have to <br>

<br>

make non-cerbellar edits to brainmask.mgz<br>

cp brain.finalsurfs.mgz brain.finalsurfs.manedit.mgz <br>

make cerebellar edits to brain.finalsurfs.manedit.mgz<br>

run recon-all -autorecon2-cp -autorecon3 -subjid name <br>

<br>

Thanks.<br>