In theory that works, but remember the FS total cranial volume is only
an estimate based on the talairach transform. It is not counting voxels
that are inside the skull.
> <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:
On 10/23/2014 12:30 PM, Mohammed Goryawala wrote:
> Thanks Doug.
>
> I was looking at a paper "ARANGO, C., MCMAHON, R. P., LEFKOWITZ, D.
> M., PEARLSON, G., KIRKPATRICK, B. & BUCHANAN, R. W. 2008. Patterns of
> cranial, brain and sulcal CSF volumes in male and female deficit and
> nondeficit patients with schizophrenia. Psychiatry Research:
> Neuroimaging, 162, 91-100.", which estimates sulcal CSF volume as
>
>
> 2.4.4. Sulcal CSF (sCSF)
>
> The sCSF was derived by subtracting T
>
> otal
> B
> rain
> V
> olume
> and V
> entricular
> V
> olume
> from T
> otal
> C
> ranial
> V
> olume
> .
> Can such a strategy be explored using FreeSurfer output ?
>
> Thanks for your advice
> Mohammed
>
>
> On Thu, Oct 23, 2014 at 12:16 PM, Douglas N Greve
>
>
> No, not currently. This is quite a hard problem even if you have a T2.
> The pulse sequences are usually low enough bandwidth that fat from the
> scalp and skull marrow shift into the CSF spaces making it
> impossible to
> properly segment that area as CSF. If you wanted an approximate value,
> you could create a binary mask from the aparc+aseg.mgz, dilated it
> by 3
> or 4 voxels, then erode it by the same amount, then remove the
> original
> mask. The remaining voxels will be something like the sulcal CSF.
>
> doug
>
>
> On 10/22/2014 04:50 PM, Mohammed Goryawala wrote:
> > Hello FreeSurfer Experts,
> >
> > Is it possible to estimate the sulcal CSF volume in Freesurfer
> > processing? If not directly are there any indirect means that
> can give
> > me an estimate?
> >
> > Thank you
> >
> > Mohammed Goryawala, PhD
> > Department of Radiology
> > Miller School of Medicine, University of Miami
> >
> >
> >
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> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
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Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
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