Re: [Freesurfer] bbregister

Hi John

one of the many nice things about bbregister is that it is quite resistant to non-brain tissue, since it's just trying to place the gray/white (and optionally the pial surface) at a reasonable spot in the volume. I guess it might make the initialization less robust, not sure, but I expect it works pretty well without doing brain extraction

cheers Bruce

On Fri, 10 Feb 2017, John Anderson wrote:

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