On Thu, Nov 14, 2013 at 7:39 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

I think it would be

--parc aparc.pial_lgi

doug

On 11/14/2013 11:27 AM, Anna Jonsson wrote:

Thank you. Can I then use
aparcstats2table --subjects XXXX --hemi lh --meas thickness --parc lh.aparc.pial_lgi.stats --tablefile aparc_lgi_lh.txt to get all the values in 1 tablefile or should I use other command?

On Wed, Nov 13, 2013 at 6:59 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:

yes and yes

On 11/13/2013 12:04 PM, Anna Jonsson wrote:

Thank you very much. By second I assume you mean second row?
And out of the values on the second row it must be the value
2.9472? Is it headed by Area_mm2 or Mean? And what are the units?

Thanks again

On Wed, Nov 13, 2013 at 4:56 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:

that looks correct. It is the 2nd number you want. The
first is
for the
medial wall (not interesting). You can have it report only for
cortex by
adding --id 1

doug

On 11/13/2013 11:45 AM, Anna Jonsson wrote:
> Dear list,
>
> I have a question about extracting global lgi
values/hemisphere. I
> think I have managed to do it correctly using :
>
> mri_segstats --slabel subj lh
$SUBJECTS_DIR/subj/label/lh.cortex --i
$SUBJECTS_DIR/subj/surf/lh.pial_lgi --sum
lh.aparc.pial_lgi.stats
>
> (Please let me know if this is not correct)
>
>
> I then get this output ( for each individual)
>
> ColHeaders Index SegId NVertices Area_mm2 StructName Mean
StdDev Min Max Range
> 1 0 7953 5220.0 Seg0000 2.4055 0.4052
<tel:2.4055%20%20%200.4052> 1.5796 2.9763 1.3967

>
> 2 1 156737 101379.9 Seg0001 2.9472 0.9038 1.7030 6.0007 4.2977
>
> I assume one of these values (if above command has worked
correctly) contains the mean lgi value for the left
hemisphere.
Can somebody please tell me which of the above values is the
correct lgi value? Additionally, what units are lgi
measured in,
and are values between 1-5 what is considered normal?
>
>
> Thank you very much
>
> Anna
>
>
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