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
Hi Alex,
if the strip removes the cerebellum, then the aseg stuff will fail (if you're using it). If you aren't it doesn't really matter.
cheers, Bruce
On Sat, 10 Sep 2005, Fornito, Alexander wrote:
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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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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Bruce Fischl -
Fornito, Alexander -
Jenni Pacheco