It will be more involved than that. You will need to create an annotation that contains your label (maybe in addition to other labels), then uses mri_aparc2aseg with the --labelwm option, something like
mri_aparc2aseg --s subject-anat --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz --annot yourannot doug dolphin...@aol.com wrote: > Hi Doug, > > thanks a lot for your answer. > > So i understand you right that i can get "exact" knowledge about the > thickness, grey matter volume and pial surface area in my ROI, but in > case of "the" ROI white matter volume, i have to look to which > cortical label my ROI counts and then I use the wmparc.files for this > label? > > Best regards > > Daniel Klein > > > > > > > > > > -----Ursprüngliche Mitteilung----- > Von: Douglas N Greve <gr...@nmr.mgh.harvard.edu> > An: dolphinede <dolphin...@aol.com> > Cc: freesurfer <freesurfer@nmr.mgh.harvard.edu> > Verschickt: Mo, 24 Okt 2011 4:48 pm > Betreff: Re: [Freesurfer] white matter volume in a ROI > > For GM area and volume, you can use mris_anatomical_stats. See the > recent thread on how. For the WM volume, how would you define the WM > volume that corresponds to you label? We have a routine that parcellates > WM based on closest proximity to a cortical label. > doug > > dolphin...@aol.com wrote: > > Dear FreeSurfer experts, > > > > i have created a ROI in qdec , where i have found a significant > > correlation between lgi and age. > > > > I mapped this ROI to all subjects. > > > > I am interested to compare in this ROI the pial-surface area, the grey > > matter volume and if possible the white matter volume for this > > specific region and i am not sure how to do this? > > > > Best regards > > > > Daniel Klein > > ------------------------------------------------------------------------ > > > > _______________________________________________ > > 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > 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. > -- 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
