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mri_glmfit-sim outputs several files that may be helpful. If you run it
with --help, you will get more info, but is this the final file you want?
csdbase.y.ocn.dat - this is a summary of the input (y) over each
cluster. It has a column for each cluster. Each row is a subject. The
value is the average of the input (y) in each cluster. This is a
simple text file.
On 8/11/2023 9:34 AM, MANSSOUR Wassima wrote:
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Dear FreeSurfer Experts,
I am new to FreeSurfer and I need to extract the mean cortical
thickness from a specific region for each subject in my dataset (then
for my 2 groups). I have already identified a significant cluster from
a group analysis, and I would greatly appreciate your guidance on how
to proceed with this analysis.
From what I understand, the general steps involve creating a label for
the region of interest and then extracting the necessary statistics.
Here's what I've tried so far:
1.Created a label for the significant cluster using the mri_cor2label
command:
*mri_cor2label --i
lh.moca_all.thickness.glmdir/MOCApos/cache.th20.pos.sig.cluster.mgh
--id 1 --l ./cluster_label.label*
*
*
2.Attempted to extract the statistics using the mris_anatomical_stats
command for the *HCA6002236_V1_MR***subject:
*mris_anatomical_stats -l cluster_label.label -f parietal_stats1
***HCA6002236_V1_MR*lh
*
However, the output *parietal_stats1 *from the mris_anatomical_stats
command is empty, and I'm not sure where I might be going wrong.
While if I try:
*mris_anatomical_stats -t
lh..moca_all.thickness.glmdir/MOCApos/cache.th13.pos.sig.cluster.mgh
-f parietal_stats2 HCA6002236_V1_MR lh*
I got 0mm in the averge thickness.
You find attached the 2 outputs files.
Thank you for your help.
--
*Wassima MANSSOUR*
Master Student at INSEA Rabat
M2SI - Information Systems & Intelligent Systems
IMRB Intern -France
wmanss...@insea.ac.ma<mailto:wmanss...@insea.ac.ma>
wassima.manss...@u-pec.fr<mailto:wassima.manss...@u-pec.fr>__
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