Martin, I'm working on this too. I think you may want to do a group analysis so the pointer is: http://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferGroupAnalysis
The recon-all process should pass step 1, 2 and 3 and not just 3. So you should run: recon-all -all -s subjid Also you can use the files: lh.aparc.a2005s.stats and rh.aparc.a2005s.stats to check cortical thickness. Notice that some areas are thin in controls also. So it would be better to create a normative base of normal subjects. Notice also that you can use SPSS or other software with this data. If you need further help please contact. Best Regards Pedro Paulo Oliveira Jr -----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Martin Kavec Sent: segunda-feira, 8 de outubro de 2007 08:38 To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Displaying cortical thickness Hi, I would really appreciate a help (steps or a link to description) on how to display cortical thinning on an inflated surface. I ran a subject through recon-all -autorecon3 and now I would basically want to see, where (s)he has abnormal thickness of the cortex. Thanks a lot in advance, Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
