On 5/15/2020 8:17 PM, Lab of Autism and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience wrote:

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Dear Freesurfer experts,

Hope everyone is doing well! Could someone please clarify some things about mris_anatomical_stats, done after running qdec + mapping label to all subjects? From what I can  understand, the following code should be used:

mris_anatomical_stats -l lh.supramarg.label \   -t lh.thickness -b -f 004/stats/lh.supramarg.stats 004 lh

But if I created the ".label" file directly on qdec, by "mapping label to all subjects", and didn't use the mri_label2label code for "target subjects", how should I work around this to perform mris_anatomical_stat correctly?

Sorry, it's been about 10 years since I used qdec and don't remember what the "mapping label to all subjects" does. My guess is that it is using mri_label2label to create labels for each subject. You can copy those labels into the label folder for each subject, then use mris_anatomical_stats

Also, I'm confused on when + where this "lh.thickness" file is created and stored.

This is created by recon-all. You can find it in subject/surf/lh.thickness

Please let me know if you need any other information about my code or my qdec output.

Thank you, Alex Job Said

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