Does mri_mask work? On 07/28/2014 12:50 PM, Bastian Cheng wrote: > Thank you, Douglas! > > Is there a way to mask my functional ROI with these binarized aparc ROIs? > > I guess what I want to do is: ROIfunctional * > ROI_precentral_binarized > masked ROIfunctional limted to precentral > region > > best regards, > Bastian. > > On 28 July 2014 18:25, Douglas N Greve <gr...@nmr.mgh.harvard.edu> wrote: >> Try using mri_binarize on the aparc+aseg.mgz volume (aparc+aseg has the >> same ROIs as aparc but in volume format). You can map this into your >> functional space. >> doug >> >> On 07/25/2014 06:29 AM, Bastian Cheng wrote: >>> Dear Freesurfers, >>> >>> Is there a way to mask a custom ROI (or label) with a volume / label >>> from automated parcellations? >>> >>> I have an overlay with fMRI activations and am only interested in the >>> precentral cortex (as segmented in rh.aparc). >>> >>> I could do masking either on the label level (fMRI activation label * >>> rh.precentral.label) >>> OR on a volume level (fMRI ROI volume * rh.precentral volume) >>> >>> ultimately, I would only be interested in surface thickness of my fMRI >>> hotspots limited to the precentral cortex. >>> >>> So the most elegant way would be if there were a function in >>> mri_segstats that allows outputs of thickness values to be "sorted" by >>> the automated parcellation. >>> >>> But any help leading there is appreciated! >>> >>> Best, >>> Bastian >>> _______________________________________________ >>> 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. >> > _______________________________________________ > 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
