Hi Shadia
no, not easily.
sorry, Bruce On Fri, 12 Jan 2018, MIKHAEL Shadia wrote:
Dear FreeSurfer experts,
Could you please advise on whether it would be possible to run recon-all in FreeSurfer 6.0 using externally-derived probabilistic white matter and grey matter masks, both of which include the cerebellum but not the ventricles, and if so, how? Would the flag -autorecon2-pial suffice?
Thank you in advance.
Shadia