Hi Mike,

Thanks for your reply . I'll give it a try.

Anthony

--- On Tue, 13/1/09, Michael Harms mharms@conte.wustl.edu wrote: From: Michael Harms mharms@conte.wustl.edu Subject: Re: [Freesurfer] GM calculation? To: slam_ono@yahoo.com Cc: freesurfer@nmr.mgh.harvard.edu Date: Tuesday, 13 January, 2009, 9:28 PM

Hi Anthony, For cortical gray matter volume, compute statistics using the {lh,rh}.cortex.label file.

i.e., mris_anatomical_stats -l lh.cortex.label -f $subj/stats/lh.cortex.stats $subj lh

That will be roughly similar to computing the volume difference between the pial and white surfaces, except that the label file takes into account that portions of the medial temporal lobe (e.g., hippocampus and amygdala) are not cortex.

cheers, Mike H.

On Mon, 2009-01-12 at 21:45 -0800, Anthony wrote:

Hi all,

I'm doing some analyses which involve GM volume . It might sound trivial but I wonder how could GM calculation be done in freesurfer? Is there a way to compute it based on GM between white and pial surfaces, and will the result of that approach be different from using what is given by aseg.mgz ?

Thanks

Anthony

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