you can also use mri_segstats with the --slabel option (spec ?h.cortex.label) and the thickness as the input
On 08/09/2013 09:36 AM, Bruce Fischl wrote: > Hi Ines > > I think mris_anatomical_thickness is your best bet. You probably want > to specify the ?h.cortex.label file with the -l flag so that it > ignores non-cortical regions > > cheers > Bruce > > > On Fri, 9 Aug 2013, Mürner-Lavanchy, Ines wrote: > >> Dear experts, >> >> please excuse my question, I'm a beginner. I really searched for an >> answer >> in the archive, but I couldn't find out what I was doing wrong. >> >> I would like to write the mean cortical thickness of a hemisphere in the >> stats file. I read one can do that by using -m thickness. >> Where in the command line do I have to put it? I tried various >> versions, but >> it doesn't work. >> >> This would be the command: >> >> aparcstats2table --hemi rh --parc aparc --meas thickness --tablefile >> "directory"//"filename" --m thickness --subjects 1 2 3 4 >> SUBJECTS_DIR : "directory" >> >> Where do I include the -m thickness option? Or do I have to add >> something >> else? >> >> Thank you very much for your help, >> Ines >> >> > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
