When you load it into freeview, use the aux/bbpet2anat.lta , eg,
freeview orig.mgz aseg.mgz mgx.ctxgm.nii.gz:reg=aux/bbpet2anat.lta
On 1/17/2023 12:46 PM, Marina Fernández wrote:
External Email - Use Caution
Dear experts,
I am trying to do PVC on FBB-PET images using the following commands:
"
mri_coreg --s s_001 --mov s_001_pet_fbb.nii.gz --reg
s_001_pet_fbb.reg.lta
mri_gtmpvc --i s_001_pet_fbb.nii.gz --reg s_001_pet_fbb.reg.lta --psf
6 --seg gtmseg.mgz --rescale 174 --default-seg-merge --auto-mask
--mgx .1 --o s_001_pet_fbb
"
The problem is that when overlaying the mgx.ctxgm.nii.gz file with the
T1.mgz of the corresponding subject, they don't match, since the
resulting MG-image is in the space of the original PET (without PVC)
instead of in the space of the freesurfer subject.
How can I make the MG image be in the freesurfer's subject space?
Where is the error?
Thank you very much in advance.
Best regards,
Marina
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