Hi Alex,
Since autorecon2 uses the brain volume as the first input, there is no need to re-run anything after editing the brain volume following autorecon1.
Jenni
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Fornito, Alexander Sent: Friday, September 09, 2005 8:51 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Skull stripping
Hi all, Couple of questions re: failures of skull stripping" - If you edit the brain volume after autorecon1, do you need to re-run autorecon1 again, or van you just continue on to autorecon2? - Is it a major problem if the strip removes the cerebellum, since it's excluded by the cuttting planes anyway, or does this interfere with finding the cutting planes later on? Thanks, Alex
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