Hi Sabrina
it's tough to tell from just the 2 slices. If you upload the subject one
of us will take a look, but it may not be possible to get good surfaces
with that extensive a stroke
cheers
Bruce
On Wed, 18 May 2016, Sabrina Yu wrote:
Hello,
I'm having problems with regenerating the surfaces for stroke cases after
editing the brainmask.mgz file. In the aseg.mgz file, the brain matter
around lesion area is correctly classified as brain matter. In the pial
surface, this brain matter is not included.
I've tried to edit the brainmask.mgz file to include this region, but when I
run: recon-all -subjid <SUBJECT> -autorecon2-pial, the surfaces generated
are not changed at all.
I have attached some images to this email. I'm new to Freesurfer, so any
help would be greatly appreciated.
Thank you.
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