If you just want the TAC for an ROI, you can use mri_gtmpvc. If you are not actually doing any PVC, then you can use mri_segstats (but you have to resample to the anatomical space)

On 6/24/2025 1:14 PM, Mia Anthony wrote:

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I would like to get a tac file of the ROI averages at the surface for each subject.

 

From: Douglas N. Greve <dgreve@mgh.harvard.edu>
Date: Thursday, June 19, 2025 at 12:38 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Re: PetSurfer surface-based SUVR

What do you mean by extract here? What do you want? A map of SUVR? A group map or the individual maps? Or do you want ROI averages? If so for the group or individually?

On 6/17/2025 1:25 PM, Mia Anthony wrote:

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Just to clarify: mris_fwhm or mri_glmfit is the last command I need to run? Can I extract SUVR values from all.lh.mgx.ctxgm.fsaverage.sm05.nii.gz?

 

Thank you

 

From: Douglas N. Greve <dgreve@mgh.harvard.edu>
Date: Wednesday, June 11, 2025 at 4:01 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Re: PetSurfer surface-based SUVR

That is all you need to run!

On 6/6/2025 8:19 PM, Mia Anthony wrote:

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Hello FS,

 

I have calculated regional SUVR and would like to calculate SUVR on the surface. I have followed the wiki tutorial, including PVC, through smoothing on the surface. The last commands I ran are:

 

mris_fwhm --smooth-only --i all.lh.mgx.ctxgm.fsaverage.sm00.nii.gz --fwhm 5 --o all.lh.mgx.ctxgm.fsaverage.sm05.nii.gz --cortex --s fsaverage --hemi lh

mris_fwhm --smooth-only --i all.rh.mgx.ctxgm.fsaverage.sm00.nii.gz --fwhm 5 --o all.rh.mgx.ctxgm.fsaverage.sm05.nii.gz --cortex --s fsaverage --hemi rh

 

 

Do I need to run the mri_glmfit command? For example:  

mri_glmfit --y all.lh.mgx.ctxgm.fsaverage.sm05.nii.gz --surface fsaverage lh --fsgd g1v0.fsgd

mri_glmfit --y all.lh.mgx.ctxgm.fsaverage.sm05.nii.gz --surface fsaverage rh --fsgd g1v0.fsgd

 

Will the mri_glmfit output provide surface-based SUVR, or will I need to run additional commands after?

 

Thank you,

Mia

 

 

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