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Hi Freesurfer team,
I want to calculate the average PET intensity values per lobe. I want to use the lobar annotations as outlined here in 'lobe mapping': https://secure-web.cisco.com/1Opn2TyIP5_MF5tP6PRtaju8QtoITdCtzrmIlxZvYGO1bUW...
My PET images are volumetric in T1w MRI space.
I have successfully created my lobes following this command:
mri_annotation2label --subject $session --hemi lh --lobesStrict lobes
However I'm getting an error with my next command:
mri_segstats --annot $session/label/lh.lobes.annot --i $session/pet_surf/SUVR/SUVR_T1space.nii.gz --sum lh.pet_lobar.sum
It is reading in the white surface, because I get this error: error: MRISread($path/$session/label/rh.lobes.annot/surf/--i.white): could not open file
How should I run this command when reading from the volumetric PET image?
Thank you,
Julie