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Hi Douglas Greve, thanks for the tip.

I tried to use SAMSEG on several images of the ADNI database obtaining very 
different values of the BV/CSF index than those defined in the reference 
article [1], more precisely they differ by an order of magnitude. Since they 
also used FreeSurfer for the calculation of the volumes, could you tell me if I 
am neglecting some interesting values or considering something that should be 
omitted instead?

The calculation of the index (with the anatomical regions of interest) for the 
generic image with ID 1075136 is shown in the attachment.

[1] 
https://secure-web.cisco.com/1kgOmQDmyoM6VUUACvqFq9dlBcuf7-_VdI2lRjPn0c1Z4DBbLPHtq9XDEd6CROq6pDHPlxONb5jftNEpia5nDV5OkdG6EPdZNto-omHQ8_Lj4LR0VQgdZU2g9u27y903mYicBS8O1aU4kvDoLVxQnGHlhH0PlCfzVtcU9D3vvzUj5wYhkbai4bUtfx0LuDmudUc0Q0H-Lq4s7jdODV5Jo885XDNsZAbrCivBmUSCgcpuclr2c-khN6JO_m5r-vYj9zU_56ovTD1QHXRZ8XNlDUOta847gp1Bwxq41PnpNNDMZB_VYdNpEahYtH3dz4uaMaHykH-At3UpqpuAgWFCNpA/https%3A%2F%2Fwww.researchgate.net%2Fpublication%2F283773154_Measuring_global_brain_atrophy_with_the_brain_volume_cerebrospinal_fluid_index_normative_values_cut-offs_and_clinical_associations


Best regards,

Michele Grasso

________________________________
Da: Michele GRASSO
Inviato: martedì 12 luglio 2022 10:57
A: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Oggetto: BV/CSF index and Sulcal CSF


Hello FreeSurfer Developers,

My name is Michele Grasso and I am a student of the master's degree course in 
Computer Engineering at the University of Catania (Italy).

I am interested in calculating the BV/CSF index [1] which is equal to the ratio 
between the sum of the volumes of gray matter and white matter and the volume 
of the CSF. Regarding the volume of gray and white matter, I referred to the 
TotalGrayVol and CerebralWhiteMatterVol volume statistics reported in the 
aseg.stats file. CSF volume was considered as the sum of two contributions: 
ventricular (Left Lateral Ventricle (SegId 4) + Left Inferior Lateral Ventricle 
(SegId 5) + Right lateral Ventricle (SegId 43) + Right Inf Lateral Ventricle 
(SegId 44) + 3rd Ventricle (SegId 14) + 4th Ventricle (SegId 15) + 5th 
Ventricle (SegId 72) + Right choroids plexus (SegId 63) + Left choroids plexus 
(SegId 31)) and sulcal CSF.  I searched the list and the sulcal CSF is not 
segmented by Freesurfer as it is indistinguishable from bone on a T1-weighted 
MRI.

What parameters in the aseg.stats file to consider to have a more likely 
measurement of the sulcal CSF? Could eTIV-BrainSegVolNotVent-ventricular volume 
be a good approximation? Finally, do I have to take into account the CSF 
statistic reported in the aforementioned file or ignore it completely?


 Thank you,

Michele Grasso



[1] 
https://secure-web.cisco.com/1kgOmQDmyoM6VUUACvqFq9dlBcuf7-_VdI2lRjPn0c1Z4DBbLPHtq9XDEd6CROq6pDHPlxONb5jftNEpia5nDV5OkdG6EPdZNto-omHQ8_Lj4LR0VQgdZU2g9u27y903mYicBS8O1aU4kvDoLVxQnGHlhH0PlCfzVtcU9D3vvzUj5wYhkbai4bUtfx0LuDmudUc0Q0H-Lq4s7jdODV5Jo885XDNsZAbrCivBmUSCgcpuclr2c-khN6JO_m5r-vYj9zU_56ovTD1QHXRZ8XNlDUOta847gp1Bwxq41PnpNNDMZB_VYdNpEahYtH3dz4uaMaHykH-At3UpqpuAgWFCNpA/https%3A%2F%2Fwww.researchgate.net%2Fpublication%2F283773154_Measuring_global_brain_atrophy_with_the_brain_volume_cerebrospinal_fluid_index_normative_values_cut-offs_and_clinical_associations
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