Hello,
A clarification about this (based on my understanding/reading of the
recon-all code) to help avoid any potential confusion about how the -
clean-bm flag operates more generally:
If you rerun the skull stripping without the -clean-bm flag, recon-all
will preserve any edits previously made
recon-all will copy the brainmask.auto.mgz to the brainmask.mgz so they
should be the same.
Allison
On Tue, 2 Dec 2008, Barkay, Gavriel wrote:
Hi,
I ran recon-all -all crashed for reasons unrelated to FreeSurfer. I re-ran the
analysis without -clean.
Is the new skull stripped volume stored in
