External Email - Use Caution
Hello FreeSufer developers,
We're trying to have a small quality control pipeline when executing recon-all. As a part of this, one doubt came to us, and couldn't find an answer:
Is the -cw256 flag applied always or only when the FOV is larger than expected? Also, when executing -autorecon1 and -autorecon2 separately, should we use this flag only in -autorecon1 or also in -autorecon2 and -autorecon3? I tried applying only to -autorecon1 and it worked apparently, but I don't know if I'm missing something.
We're using the following version of Freesurfer: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
I would be more than grateful for any help, and sorry if that might be a lame question.
Sincerely,
Javier Rojo Muñoz