[Freesurfer] Different MPRAGE sequences

Hello list,

I have a group of subjects (4 patients and 8 controls) in which one MPRAGE sequence was used and another group of subjects (2 patients and 2 controls) where a diffent MPRAGE was used. Both groups were acquired in the same scanner. For each subject I have two anatomical sequences and I'm working with the average dataset. My question is can I put both groups together for comparision?

I've thought about this and I can't really be sure... I was thinking that since for group 2 the number of acquisitions is balanced maybe the overall impact of different sequences won't be significative... Patients and subjects are age-matched in both groups.

Please, any advice will be greatly appreciated!

Thank you!