[Freesurfer] Extracting Mean Cortical Thickness from Specific Region

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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 wmanssour@insea.ac.mamailto:wmanssour@insea.ac.ma wassima.manssour@u-pec.frmailto:wassima.manssour@u-pec.fr