I have an ROI (nii.gz) in the correct orientation (pre-registered to the T1w) however, it has a few more axial slices than the T1w image I am overlaying it on. I use ‘mrtransform -template’ to regrid the ROI, and it ultimately changes its orientation (transform).
Is there a way to regrid without repositioning? I attempted to use ‘mrcop’ to simply remove a few axial slices - but this shifts the ROI axially - which isn’t great.
Many thanks - Jamie