MGH file where each frame is the volume
fraction of (in order) cortical gm, subcortical gm, white matter, and csf.
Cheers
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of ERNEST KISSI
Sent: Sunday, February 11, 2024 7:44 AM
To: Freesurfer support list
Subject: [Freesurfer] Tissue
External Email - Use Caution
Hello freesurfer team,
Please does Freesurfer have a function or a code for tissue Segmentation
just like in FSL that you can do tissue based segmentations into GM, WM and
CSF and also their partial volume segmentations?
Thank you.
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Hi Nayoung,
you could certainly replace the labels in the aseg.mgz in matlab. The file
FreeSurferColorLUT.txt contains all the indices you will need (e.g.
Left_Hippocampus is index 17 in the aseg.mgz). Note that we don't label
sulcal csf, just ventricular csf.
cheers,
Bruce
On Tue, 27 Feb 2
Hello,
I am wondering if I can get a mask(labelled volume) for each tissue types - not
a structure. I can see that Freesurfer is generating a surfaces between
gray/white and gray/CSF. Can I get a volume which correspond to WM/GM/CSF?
Thank you.
Nayoung
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