If you just want the area of the regions, then that will be in the stats/?h.aparc.stats file. The first command will give you mean mean signficance in each parcellation which is going to be hard to interpret. The mri_vol2surf command looks right

Thanks Dr. Greve,

I can get the surface (Area_mm2) mean sig value by the command:

mri_segstats \

--annot subid rh aparc\

--i sig-rh.nii \

--exclude 0 \

--sum sig-rh.bb.stats

And I registered the functional activation map on the surface by

mri_vol2surf --mov sig.nii.gz \

--srcreg register.dat \

--hemi rh \

--o sig-rh.nii \

--projfrac 0.5

Just to make sure I didn’t miss something!

Thanks again for the advice!

Best,

Foucault

On Fri, Mar 16, 2018 at 11:27 PM Douglas Greve <dgreve@mgh.harvard.edu> wrote:

If you want to extract data that is already on the surface, you can use mri_segstats with the --annot option. If you want time  courses as the output, use the --avgwf. Also, you'll probably want to add --exclude 0 to not report  data from unknown regions.

On 3/16/18 7:23 AM, zuxfoucault Wong wrote:

Dear FreeSurfer experts:

When I registered the map of functional activation on each hemisphere, how can I extract mean activation value based on each parcellation region on the surface?

According to FreeSurfer tutorial https://surfer.nmr.mgh.harvard.edu/fswiki/MultiModalTutorialV6.0/IndividualFMRI 

, the measures extracted by mri_segstats is the functional activation map resampled to the individual's anatomical space by mri_vol2vol. Can mri_segstats extract mean activation value based on each parcellation region in a surface-based way?

Thank you for your time!

Best,

Foucault

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