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Thank you Douglas for this clarification.
So, correction of inhomogeneities and intensity normalization would have no
positive effect on the PET/MR coregistration ?
Best,
Matt
> Le 3 janv. 2019 à 20:04, Greve, Douglas N.,Ph.D. a
> écrit :
>
> I d
I doubt it would make much difference. If your PET has lots of
extracerebral uptake, then I might use something that has not been skull
stripped (eg, orig.mgz, T1.mgz, nu.mgz). If it does not have much
extracerebral, then using brain.mgz is probably better.
On 12/31/18 10:53 AM, Bruce Fischl w
Hi Mike
we expect the cortex to have the topology of a sheet, and pathologies that
change that will cause unpredictable results. If you can segment the
pathology you would typically want to fill it in in the wm.mgz. As for the
deep segmentation, again it will be a case-by-case basis. The nonli
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I see... what does the fix topology step expect from the wm.mgz meaning how
is it testing it and what are the values it would accept... for example if
we were to script an auto fill step which calls a program which works on
wm.mgz between steps what wou
I see. Getting FS working is going to be a case-by-case thing then. For
holes extending into the ventricles you will probably need to fill the
hole in the wm.mgz to make the topology closer to what we expect it to be.
For the gliomas it depends on where they are
cheers
Bruce
On
Tue, 1 Jan 2019
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In some cases this is a hole in the cortex extending to the ventricle...in
others it 8s a low grade glioma which substantially enlarges and
distorts the cortex
On Tue, 1 Jan. 2019, 2:54 am Bruce Fischl Hi Matt
>
> yes, we have done this a number o
Hi Matt
yes, we have done this a number of times but of course it depends a lot
on the details of the abnormality so it is hard to give generic advice
cheers
Bruce
On Fri, 28 Dec 2018, Michael Sughrue
wrote:
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Has anyone had success extracting
HI Matt
yes, I would agree, but Doug will give you the definitive answer
cheers
Bruce
On Fri, 28
Dec 2018, Matthieu Vanhoutte wrote:
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Dear Freesurfer’s experts,
I used mri_coreg command to coregister PET image onto T1 volume. Basically,
this command core
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Has anyone had success extracting surfaces of brains with obviously
abnormal surfacespost-surgical or very distorted cortices from tumor
etceven if the extraction is imperfect, is it possible to do with
freesurfer and get something imperfect but
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Dear Freesurfer’s experts,
I used mri_coreg command to coregister PET image onto T1 volume. Basically,
this command coregister PET image onto orig.mgz volume (default target).
However, I wonder if T1.mgz wouldn’t be a better target since it has been
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