You can try mris_volmask \ --label_left_white 2 --label_left_ribbon 3 \ --label_right_white 41 --label_right_ribbon 42 \ --save_ribbon $subjid
doug
On 07/08/2012 01:18 PM, Matt Glasser wrote:
Hi Bruce,
He just needs the grey matter part of a typical ribbon.mgz volume. He lost some of his recon-all folder.
Peace,
Matt.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: Sunday, July 08, 2012 12:17 PM To: Colin Reveley Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Ribbon
Hi Colin
what is the representation you want in the end? You can also fill the interior of the surfaces using mris_fill then do some boolean algebra on the results of e.g. the white and pial interiors.
cheers Bruce
On Sun, 8 Jul 2012, Colin Reveley wrote:
Hi - I need to make a ribbon volume. I have all the necessary surfaces,
but
I'm lacking an aseg.mgz because the data is monkey. I saw one guy on the list had success by just calling his orig.mgz aseg.mgz. I tried that, and
it
calculated the left right pial and white distances. Men sadly it
segfaulted.
The program mri_ribbon will give me separate left and white gm ribbons. I combined those, coloured them 3 and 42 and did my level best to fill the
wm
with the right values, but some bits are wrong.
What I'm actually trying to do is use matt glassers myelin mapping in
caret.
other things could be wrong than my ribbon estimate.
If anyone has an idea how to make a good ribbon without aseg I'd
appreciate
it. Please bear in mind I may be missing much of what one gets when one
runs
recon-all. I have thickness, curv, surfaces, filled.mgz, pretesselstion wm.mgz not so much else. The filled.mgz doesn't fill all non cortex the
way
the bert ribbon does, so it's not that useful.
Thanks,
Colin
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