Hey Bruce, Never responded but this worked out great thanks for the help.
-----Original Message----- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: Thursday, October 23, 2014 9:31 AM To: Freesurfer support list Subject: Re: [Freesurfer] Creating an ROI mask for Cortical Thickness Analysis Hi Michael you can use mri_annotation2label to extract a specific label from the aparc file and go from there. cheers Bruce On Thu, 23 Oct 2014, Smith, Michael wrote: > I guess I'm not entirely sure how to do that? Are there any tutorials on how > to extract an ROI from the aparc.stats file? > > -----Original Message----- > From: freesurfer-boun...@nmr.mgh.harvard.edu > [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N > Greve > Sent: Wednesday, October 22, 2014 4:21 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Creating an ROI mask for Cortical Thickness > Analysis > > > Why not just get it from the ?h.aparc.stats file? > > On 10/22/2014 03:43 PM, Smith, Michael wrote: >> Hello Freesurfer's >> >> I am trying to look at the cortical thickness for a specific ROI on >> the cortical surface (Primary Auditory Cortex: transverse temporal >> gyri). I found a specific tutorial >> (https://surfer.nmr.mgh.harvard.edu/fswiki/VolumeRoiCorticalThickness >> ) however the tutorial assumes I already have an ROI mask created. I >> was wondering if anyone had any tips on creating an ROI for the >> cortical surface from the parcellation/annotation files. I know you >> can "hand-draw" ROI's in tkmedit or freeview but I would prefer >> something less subjective that doesn't rely on my untrained eye and >> unsteady hand! Thanks in advance. >> >> Best, >> >> Michael S. >> >> >> >> _______________________________________________ >> 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 > > > _______________________________________________ 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
