Re: [Freesurfer] created a new subcortical atlas; what's next?

Hi Anthony

you can also load the atlas as if it were a volume in freeview and look to see if it looks reasonable.

cheers Bruce

On Fri, 13 Apr 2012, Anthony Dick wrote:

Hello,

I successfully  created a new subcortical atlas for the cerebellum (at least I think I did--not sure how to check it without running a new segmentation). If I want to apply this to many brains, I think I want to run:

recon-all -subcortseg -subjid <subject name>

How do I tell it to call, e.g., RB_all_withskull_2012-04-13.gca instead of e.g., RB_all_withskull_2008-03-26.gca.

Basically, I want to apply the new cerebellar parcellation to existing freesurfed brains.

Anthony