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:
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.