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:
External Email - Use Caution
I would like to get a tac file of the ROI averages at the surface for
each subject.
*From: *Douglas N. Greve <dgr...@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:
* External Email - Use Caution *
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 <dgr...@mgh.harvard.edu>
<mailto:dgr...@mgh.harvard.edu>
*Date: *Wednesday, June 11, 2025 at 4:01 PM
*To: *freesurfer@nmr.mgh.harvard.edu
<freesurfer@nmr.mgh.harvard.edu>
<mailto: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:
* External Email - Use Caution *
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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