[Freesurfer] mri_robust_register for 2D images

Hi, We are using mri_robust_register in one of our pipelines to register two 2D T2 images from the same patient (2 different timepoints). We resample both volumes into halfway space to then perform image subtraction. Both T2 volumes are 2D images, each with 44 slices. However when volumes are resa

[Freesurfer] surface based analyses using PET

Dear FreeSurfers, I would like to perform surface based analyses using PET but I am not sure I am doing things correctly. For each subject, I have reconstructed the 3DT1 MRI using recon-all –all. Then I have coregistered the PETs with the anatomical using: Bbregister --s name --mov pet.nii