Thanks On Thu, Oct 23, 2014 at 12:34 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu > wrote:
> > 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. > > 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 > > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > > > > > 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 > > > > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > -- > > Douglas N. Greve, Ph.D. > > MGH-NMR Center > > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > > Phone Number: 617-724-2358 <tel:617-724-2358> > > Fax: 617-726-7422 <tel:617-726-7422> > > > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > Outgoing: > > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu <mailto: > Freesurfer@nmr.mgh.harvard.edu> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > The information in this e-mail is intended only for the person to > > whom it is > > addressed. If you believe this e-mail was sent to you in error and > > the e-mail > > contains patient information, please contact the Partners > > Compliance HelpLine at > > http://www.partners.org/complianceline . If the e-mail was sent to > > you in error > > but does not contain patient information, please contact the > > sender and properly > > dispose of the e-mail. > > > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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