2 Aug
2011
2 Aug
'11
9:45 a.m.
Hi Jeff,
you can run recon-all with flags -autorecon1, -gcareg, -canorm, -careg, -careginv, -rmneck, -skull-lta and -calabel if you want to generate files upto aseg.mgz. Please refer to this wiki for more details about the flags.
http://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllTableStableV5.1
Sita.
On Mon, 1 Aug 2011, Jeff Eriksen wrote:
I would like to run FreeSurfer just up to the point it creates the aseg file, and no further. I believe this would be steps 1 through 11. Is there any way other than making a copy of the recon-all script and removing everything after step 11. Not sure I know exactly where this is.
-Jeff