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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? Also, I'm confused on when + where this "lh.thickness" file is created and stored. 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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Hello Freesurfer experts, Just wanted to follow-up from my last email. If any clarification is needed regarding what I'm trying to understand from mris_anatomical_stats, please let me know!
Kind regards, Alex
On Fri, May 15, 2020 at 8:17 PM Lab of Autism and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience < ladn@email.gwu.edu> wrote:
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? Also, I'm confused on when + where this "lh.thickness" file is created and stored. Please let me know if you need any other information about my code or my qdec output.
Thank you, Alex Job Said
On 5/15/2020 8:17 PM, Lab of Autism and Developmental Neuroscience, Lab of Autism and Developmental Neuroscience wrote:
External Email - Use Caution
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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