[Freesurfer] CSF Volume difference between recon-all-clinical and SAMSEG

Dear FreeSurfer Developers, I seek clarification regarding a discrepancy in cerebrospinal fluid (CSF) volume measurements obtained using different FreeSurfer tools. In my analysis, I measured CSF volume using both recon-all-clinical.sh and SAMSEG for the same subject. However, the results were

Re: [Freesurfer] CSF volume

I see, thanks! > 1. No, just add up all the ventricle measures. > 2. I think FSL might do this, but you would probably have to mask out the > ventricles as I doubt they label sulcal csf separately > > > On Tue, 17 Jun 2014, > pfot...@nmr.mgh.harvard.edu wrote: > >> Hi Bruce, >> >> Thanks for your

Re: [Freesurfer] CSF volume

1. No, just add up all the ventricle measures. 2. I think FSL might do this, but you would probably have to mask out the ventricles as I doubt they label sulcal csf separately On Tue, 17 Jun 2014, pfot...@nmr.mgh.harvard.edu wrote: > Hi Bruce, > > Thanks for your reply! I had a couple follow u

Re: [Freesurfer] CSF volume

Hi Bruce, Thanks for your reply! I had a couple follow up questions: 1) In order to calculate the total ventricular CSF, should I add the CSF volume reported in the aseg.stats file to the other ventricular volumes or no? 2) Would there be a way to segment the sulcal CSF based on the T2 image? T

Re: [Freesurfer] CSF volume

Hi Panos sorry, we don't segment sulcal CSF Bruce On Mon, 16 Jun 2014, pfot...@nmr.mgh.harvard.edu wrote: > Hi FS community, > > I was wondering whether there is a way to calculate accurately the CSF > volume with FreeSurfer (I have both T1 and T2 images). Should I just add > the ventricular st

[Freesurfer] CSF volume

Hi FS community, I was wondering whether there is a way to calculate accurately the CSF volume with FreeSurfer (I have both T1 and T2 images). Should I just add the ventricular structures and the CSF volume reported in aseg.stats or is there another way to account for the sulcal CSF based on the T

Re: [Freesurfer] CSF Volume

Hi Elena, can you add up the various ventricular structures to get total ventricular volume, but we don't segment sulcal CSF, since it's not distinguishible from bone on a T1-weighted MRI. cheers Bruce On Tue, 2 Nov 2010, Elena Molina wrote: > Hi, > > I would like to calculate the total CSF

[Freesurfer] CSF Volume

Hi, I would like to calculate the total CSF volume using FS. How should I proceed? Thanks in advance. Elena ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this

Re: [Freesurfer] CSF volume

Hi Ed you would need a T2 or PD scan for that. The CSF label isn't reliable and only refers to bits of CSF here and there (not sure why the CMA included it at all) cheers Bruce On Wed, 22 Sep 2010, Ed Gronenschild wrote: > Hi, > > One of the volumes listed in the aseg.stats is > called "CSF".

[Freesurfer] CSF volume

Hi, One of the volumes listed in the aseg.stats is called "CSF". Its volume is too small to indicate the total CSF volume of the brain. What is its meaning? If I would like to get the total CSF volume how should I proceed? Ed ___ Freesurfer mailing li