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Hi Doug,

Thank you! Is that the same output as using mri_gtmpvc with --psf 0 --no-tfe and look at the mgx.ctxgm.nii.gz ?

Thanks Julie

On Tue, 12 Jan 2021 at 10:39, Greve, Douglas N.,Ph.D. < DGREVE@mgh.harvard.edu> wrote:

If you've run mri_gtmpvc already, you can add --save-input and it will save a file called input.rescaled.nii.gz which will be rescaled to your reference region

On 12/29/2020 4:19 PM, Julie Ottoy wrote:

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Dear Freesurfer team,

I have a question related to petsurfer. On the website, it is stated that "If you are not using PVC, you can use the template.reg.lta to sample the PET volume onto the surface using mri_vol2surf, then apply standard surface-based analysis."

However, I was wondering how to do this for PET data that I first want to normalize to a reference region (to perform group-wise glm analyses afterwards). For example, I want to transform the "non-pvc and pons-rescaled PET volume" to the surface. Is there a way to easily do this? Or should I use the --scale flag with vol2surf and input the non-pvc reference region value for each subject reading from the gtm.stats.dat file, which I got from the mri_gtmpvc with --psf 0 --no-tfe --no-rescale?

Thank you for the help! Best regards Julie

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