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I think these are not grey matter but cortical parcellation. FSL can output grey matter segmentation but I do not think freesurfer has such an output. In aparc.stats (rh.aparc or lh.aparc), there is only GrayVol and no intensity measure. I want to know how I can measure the intensities for the grey matter regions.
On Wed, Feb 21, 2024, 5:25 PM Huang, Yujing YHUANG43@mgh.harvard.edu wrote:
Recon-all outputs these 3 aparc aseg volumes:
aparc.DKTatlas+aseg.mgz
aparc.a2009s+aseg.mgz
aparc+aseg.mgz
Are these what you are looking for? They should work the same way as aseg volume.
Best,
Yujing
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> *On Behalf Of *ERNEST KISSI *Sent:* Tuesday, February 20, 2024 3:22 PM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] Grey Matter Intensities
External Email - Use Caution *Hi Freesurfer team,
Recon-all output shows the white matter volumes and white matter intensities of different brain regions but only shows grey matter volumes. I want to know if there is a function or a flag to also get information on the regional grey matter intensities.
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