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http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/

BV = GV + WM

 

 

 

Van: FSL - FMRIB's Software Library [mailto:[log in to unmask]] Namens Jacqueline Zimmermann
Verzonden: maandag 14 maart 2016 17:28
Aan: [log in to unmask]
Onderwerp: [FSL] FAST and total brain volume

 

Hi FSL peeps,

I was hoping to get the total brain volume for a subject, which includes WM, GM and perhaps CSF (?)

I am looking into FAST, which does a segmentation of these 3 tissue types:
http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FAST#Tissue_Volume_Quantification

Here it is explained how to estimate the tissue volume for a given class, as such:
vol=`$FSLDIR/bin/fslstats structural_bet_pve_1 -V | awk '{print $1}'`
mean=`$FSLDIR/bin/fslstats structural_bet_pve_1 -M`
tissuevol=`echo "$mean * $vol" | bc -l`
echo $tissuevol

My question is - how can I calculate the TOTAL brain volume? Can I do this simply by summing the tissuevol of the WM, the GM, and the CSF?

Furthermore, is it typical to include the CSF in the total brain volume?

Thanks,

Jacqueline