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Dear FS experts and users,

I’m having some troubles with CAT surfaces visualisation in tkregister2 and Freeview.

Context: I’ve generated some surfaces with CAT12 and I’ve double checked them with Freeview [see attachment1]. Since they looked reasonable, I wanted to project some quantitative MRI data onto the surface, for visualisation purposes only. I used bbregister to register the qMRI brain to the anatomy brain and I’ve checked the results with Freeview, which seemed quite good. Finally, I used mri_vol2surf to get the projection I wanted onto the CAT surface.

My problem is when I add the surface overlay the results seem very off, as if the surface from which the overlay is derived is not in the proper space. When I check the registration using tkregister2 I discovered the source of the problem [see attachment2]. It seems to me like the CAT surface is loaded into tkregister2 with a different transform than in Freeview, and, I guess, mri_vol2surf is doing the same as tkregister2.

My question is: is there any way to force mri_vol2surf to load the surfaces like Freeview does? Any help is highly appreciated!

Here’s a rundown of the commands I ran after the CAT12 .gii file is created: mris_convert ?h.CATsurface.gii ?h.central bbregister --s $subjid --mov qMRImap.nii --init-fsl --reg register.dat --t2 mri_vol2surf --mov qMRImap.nii --ref orig.mgz --reg register.dat --hemi ?h --surf central --o qMRIsurf.mgz

Thank you very much in advance!

Ricardo

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