Hi Emma,
Could you take a look at the recon-all.log file I sent you?
Best Mateus
Enviado do meu iPhone
Em 11 de ago de 2017, às 11:18, Boyd, Emma EBOYD2@mgh.harvard.edu escreveu:
Hi Mateus,
Please attach the recon-all.log file for your subject and I will take a look.
Best,
Emma
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of MATEUS ROZALEM ARANHA mateus.aranha@hc.fm.usp.br Sent: Friday, August 11, 2017 9:56 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Skullstriping problems
Hi,
I had problems with skullstriping. I ran recon-all and part of the skull is being considered as cortex in the segmentation. I tried to fix this using:
recon-all -skullstrip -wsthresh 50 -clean-bm -subjid <subject name>
and than
recon-all -autorecon-pial -subjid <subject name>
But nothing changed.
Do I need to run recon-all all over?
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