In mri_segstats, use --seg $SUBJECTS_DIR/xyz/mri/aparc+aseg.mgz --ctab-default
...
when you use --annot, you are saying that the input is on the surface.
On 5/17/2019 9:07 AM, Boris Rauchmann wrote:
External Email - Use Caution
Dear Freesurfer community,
I am trying to extract SUV values from sub-cortical segmentation or gtmseg I
don t want to use any PVC.
I used the following commands:
gtmseg --s xyz
then
mri_coreg --s xyz --mov abetapet.nii.gz --reg abetapet.reg.lta
following
mri_vol2vol --mov abetapet.nii --reg abetapet.reg.lta --targ orig.mgz --o
abetapet.sm00.nii.gz
and
mri_segstats --annot xyz lh gtmseg --i abetapet.sm00.nii.gz --sum
xyz_abeta.stats
resulting in this dimension mismatch error:
input 256 256 256
seg 416 450 476
Is that the correct way for doing this analysis? any suggestions how to solve
the mismatch error?
Thanks,
Boris
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