it does use an atlas. Check out the help in mri_watershed - there is a switch that turns off the atlas usage.
cheers Bruce 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