You can try using --rbv. In theory, you can use mueller-gaertner
(--mgx), but I don't have it set up to look at WM or CSF. And be careful
because the extracerebral CSF segmentation is often not very good.
On 5/21/2020 1:07 PM, Barletta, Valeria wrote:
Yes I need the lh and rh cerebral WM for sure, but not just the
values, also an image.
And I need also a corrected image for the extra cerebral CSF. How can
I get that?
Thank you very much,
Valeria Barletta, MD
Massachusetts General Hospital
149 13th Street, Charlestown MA 02129
(617)-724-8823
------------------------------------------------------------------------
*From:* [email protected]
<[email protected]> on behalf of Douglas N. Greve
<[email protected]>
*Sent:* Thursday, May 21, 2020 10:32 AM
*To:* [email protected] <[email protected]>
*Subject:* Re: [Freesurfer] question on partial volume correction
It will certainly do cortex. We do not have a segmentation for
subarachnoid spaces. Or are you just talking about extra cerebral CSF?
We do have a segmentation for xCSF, but it is not the most beautiful
thing in the world. For WM, the GTM will give you a PVC corrected
value for the entire lh and rh cerebral WM (and cerebellar) segments.
Is that all you need?
On 5/19/2020 11:36 AM, Barletta, Valeria wrote:
Dear Freesurfers,
We need to analyze PET data after correcting for partial volume
effect in the cortex, white matter and subarachnoid space. Is
Freesurfer's partial volume correction working on all these areas or
only the grey matter volume and surface? Is there a way to use gtmseg
on the white matter and outside the pial surface?
Thanks a lot,
Valeria Barletta, MD
Massachusetts General Hospital
149 13th Street, Charlestown MA 02129
(617)-724-8823
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