You can add --aparc+aseg (hit 'c' to toggle on and off), alternatively
You can use tkregsiterfv (same command arguments) but add -aparc+aseg -seg-outline
You will need to use the lta registration file (not the .dat)

On 3/29/2021 6:13 PM, Nasiriavanaki, Zahra wrote:

Dear Freesurferers,

I have a question and I appreciate it much if you could please reply.

I need to know how to check subcortical functional to anatomical registration. I know for checking the cortical registration I can use the below command:

tkregister2 --s $subj --mov template.nii.gz --surf --reg init.register.dof6.dat

Could you please tell me what command should I use to check the registration in subcortex?

Thanks

MOna

Zahra (Mona) Nasiriavanaki, M.D.
Postdoctoral Research Fellow

Department of Psychiatry
Massachusetts General Hospital
149 13th Street, 149-2615
Boston, MA, USA, 02129
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