Those are the values I mentioned before (lhCortex, etc, see below). I don't understand your concern about the deep structures. doug ps please remember to post to the freesurfer list and not to me directly. thanks!

On 07/24/2012 06:56 AM, Emelie Andersson wrote:

Thank You for your answer.

I have another question: If i want to measure only the cortical volume (i.e not the deep grey structures such as the basal ganglia) - how do I do? How are the deep grey structures and ventricles excluded from the WM volume?

Look forward to hear from You,

Best regards Emelie

On Tue, Jul 17, 2012 at 5:41 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

This is computed by computing the volume inside the pial surface
and subtracting the volume inside the white surface (and
accounting for small amounts in the "unknown" region).
doug


On 07/17/2012 04:47 AM, Emelie Andersson wrote:

    Thank You Douglas,

    May I ask if You know how the numbers were calculated?

    best regards
    Emelie

    On Mon, Jul 16, 2012 at 6:11 PM, Douglas N Greve
    <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
    <mailto:greve@nmr.mgh.harvard.edu
    <mailto:greve@nmr.mgh.harvard.edu>>> wrote:

        In the aseg.stats file, there will be these values

        # Measure lhCortex, lhCortexVol, Left hemisphere cortical
    gray matter
        volume, 218425.204942, mm^3
        # Measure rhCortex, rhCortexVol, Right hemisphere cortical
    gray matter
        volume, 212261.052152, mm^3
        # Measure Cortex, CortexVol, Total cortical gray matter
    volume,
        430686.257094, mm^3

        does this work for you?
        doug


        On 07/16/2012 03:17 AM, Emelie Andersson wrote:
    > Hello,
    >
    > We have a some doubts about how to measure the total cortical
        volume.
    > Is it recommendable to use GM = pial surface - white matter?
    >
    > Hope to hear from You,
    >
    > Best regards
    > Emelie
    >
    >
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