Hi Nate,
sorry, I think we were each waiting for someone else to answer :). I'm not sure about the BrainSegVol. It shouldn't include ventricle in principle, but in practice it might. Probably the easiest thing to do is to use mri_label_volume -a aseg.mgz
which will give you the volume of all the non-zero voxels in the aseg, the use it again to compute the volumes of the structures you want to remove (ventricles, cerebellum, etc...). We'll look into the other question and get back to soon.
cheers Bruce
On Mon, 13 Apr 2009, Dankner, Nathan (NIH/NIMH) [F] wrote:
I think this may have slipped through the cracks, so I am posting it
again. I apologize if this has been answered already. If the information is available elsewhere and I happened to miss it, please let me know.
-----Original Message----- From: Dankner, Nathan (NIH/NIMH) [F] Sent: Thu 4/9/2009 1:55 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] total brain volumes
I am looking to derive total brain volume measures from the data that I
have. Judging by reading previous posts, it seems that BrainSegVol in aseg.stats includes cerebellum and ventricles. Is there any way to eliminate these from the calculation? Is it kosher to subtract the cerebellum/ventricle measures found elsewhere in aseg.stats/wm.parc from BrainSegVol, or are these derived differently from BrainSegVol? Secondly, would merely adding the left-cerebral-cortex to right-cerebral-cortex measures found in aseg.stats give me total brain volume? Thank you in advance, >
Nathan
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