Hi Teo,
Yes it does, but you can use the -no-wsgcaatlas flag. You can also try
using gcut which doesn't use an atlas (almost certain).
Link with skullstripping info:
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/SkullStripFix_freeview
-Louis
On Fri, 27 Jun 2014, Teo Gelles wrote:
Hi Everyone,
I am trying to skullstrip an mri image without using an atlas. Does the
following command use an atlas at any point? If so, is there a way to run
the skullstripping algorithm without using information from an atlas?
recon-all -s bert/ -clean-bm -skullstrip
Thanks.
Teo Gelles
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