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-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@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.
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