Can you send me the aseg.stats file for a single subject where you are seeing this effect? doug

On 11/08/2012 03:45 AM, Zheng Hui wrote:

Hi Doug, I sum all structures except ventricle, CSF, cerebellum and brainstem in order to compare with SubCortGrayVol. Even the former includes some white matter structures and all subcortical structures, it is smaller compared to SubCortGrayVol.

My original question is about calculating the total cerebral volumes, when I found *CortexVol + CorticalWhiteMatterVol + SubCortGrayVol* is much bigger than *CortexVol + CorticalWhiteMatterVol + Sum(all structures (after ICV in the list) except ventricle, CSF, cerebellum and brainstem)*.

Hope I explained it better this time.

Cheers, Zheng Hui

On 11/6/12 2:14 AM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

Hi Zheng, there is something wrong with your math. When I sum up
all the
columns in your table from Left-Lateral-Ventricle to CC_Anterior,
I get
215952 for the first row (you get only 67548). Can you double
check your
calculations?
doug

On 10/28/2012 11:53 PM, Zheng Hui wrote:

    Forgot to attach the excel file. Sorry for that.

    From: zhenghui <zheng.hui@duke-nus.edu.sg
    <mailto:zheng.hui@duke-nus.edu.sg>
    <mailto:zheng.hui@duke-nus.edu.sg>
    <mailto:zheng.hui@duke-nus.edu.sg%3E>>
    Date: Monday, October 29, 2012 11:52 AM
    To: 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%3E>>
    Subject: [Freesurfer] Total cerebral volume.

    Hi Doug,

    Thanks for replying. But our datasets do showed that
    Sum(all structures (after ICV in the list) except ventricle, CSF,
    cerebellum and brainstem) is much smaller SubCortGrayVol. The
    former
    is only about 30-40% of the later. We are using FS 5.1.0
    without the
    SupraTentorialVol fix.I attached the aseg file for your
    reference (the
    last three columns in the sheet).

    Thanks,
    Zheng Hui

    On 10/24/2012 09:01 AM, Zheng Hui wrote:
    >
    > Hi freesurfer,
    >
    > We are trying to calculate the total cerebral volume which
    excludes
    cerebellum, brainstem, ventricle and CSF from the aseg.txt. Do
    we use
    >
    > CortexVol + CorticalWhiteMatterVol + SubCortGrayVol
    > Or
    > CortexVol + CorticalWhiteMatterVol + Sum(all structures
    (after ICV in
    the list) except ventricle, CSF, cerebellum and brainstem)
    This should give very close to the same value. I don't think
    it makes a
    difference.
    >
    >
    > Also, I saw Doug's post about the bug fixing for
    SupraTentorialVol.
    To re-run the segstats for longitudinal subjects, any extra
    step other
    than "recon-all –long tpN baseID –segstats" and does it affect
    any
    other structure or just SupraTentorialVol?
    It should not affect other structures.
    doug


-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358
Fax: 617-726-7422

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