If you had 5.3 in addition to 4.5, you could run the following command for each subject
cd $SUBJECTS_DIR/yoursubject mri_segstats --seg mri/aseg.mgz --sum stats/aseg.53.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab $FREESURFER_HOME/ASegStatsLUT.txt --subject yoursubject Note that it creates stats/aseg.53.stats doug On 10/24/2013 02:08 PM, Natalie Garcia wrote: > Dear all, > > I've been using Freesurfer v4.5.0 for some time and have reconned > about 100 participants. I am wondering if there is an automatic way to > obtain the total gray matter volume for all the subjects I have run so > far under this version, or would it be necessary to update to v5.2? > > Any help would be greatly appreciated! > > > Best, > Natalie > -- > Natalie V. Garcia > Graduate Student, Cognitive Psychology > Psychology Department > The Pennsylvania State University > 423 Moore Building > nvg...@psu.edu <mailto:nvg...@psu.edu> > > > _______________________________________________ > 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.
