For version 6, it should not matter.

Hi FS experts,

I want to register T1 image to its freesurfer space (i.e. wmparc.mgz) using the command 

bbregister  --t1 --mov T1.nii --init-fsl --reg t1.reg.dat --s subj

 

do I need to apply brain extraction tools before this step or bb register can accept non-brain extracted images?

 

Best,
John

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