It is giving you values for two segmentations:
inside the label and outside the label. Use --id 1 to get only
values inside the cortex label
On 9/9/2020 11:27 AM, vittal korann wrote:
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Dear FreeSurfer experts
I am working on the gyrification index of
schizophrenia patients. I had collated global brain values such as
thickness, GM, and WM volumes. In addition, I wanted to tabulate
gyrification values. Using the below link I was able to extract the
hemispheric mean gyrification values.
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But it is giving me 2 rows of output that are
adding more ambiguity to the existing problem. Below is the command which I used to get mean
gyrification for the left hemisphere and also the corresponding
output.
*Command Line: *
mri_segstats --slabel CSRI104 lh
/usr/local/freesurfer//subjects/CSRI104/label/lh.cortex --i
/usr/local/freesurfer//subjects/CSRI104/surf/lh.pial_lgi --sum
lh.aparc.pial_lgi.stats
*Output: *
# NRows 2
# NTableCols 10
# ColHeaders Index SegId NVertices Area_mm2 StructName Mean
StdDev Min Max Range
1 0 6879 4687.8 Seg0000 2.4509 0.2838
1.8067 2.8873 1.0806
2 1 128054 84259.7 Seg0001 3.0148 0.6366
1.9369 4.7611 2.8242 My confusion is that which row I should take
it as a mean gyrification value for the left hemisphere (seg0000 or
seg0001)?Please guide me if there is a way to combine
two hemispheric values and make it as mean gyrification alike mean
thickness.
With regards
Korann
On Wed, Sep 9, 2020 at 4:51 PM vittal korann
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wrote:
FreeSurfer experts
I am trying to extract the mean gyrification values for the whole
brain alike cortical thickness.
We have all the whole-brain parameters in 'aparc.stats' file. But
we do not have one for the gyrification index. Is there a way to
do it?
Would be grateful for your help.
Best
Korann
*/
/*
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