Dear Martin,

I think that this thread is relevant for you:

http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg34508.html

You would have to map Yeo atlas to individual brain and then extract the LGI values using command:

mri_segstats --annot my_subject_id lh aparc --i $SUBJECTS_DIR/my_subject_id/surf/lh.pial_lgi --sum lh.aparc.pial_lgi.stats

where aparc replace by name of your generated Yeo atlas annot file.

Regards,

Antonin Skoch


Hi everyone,

I was wondering if someone could please address the following question
regarding FreeSurfer usage.

I would really appreciate any help.

Thanks.

Hi,

I used following command to extract LGI values from a set of subjects:

recon-all -s <subj> -localGI

Output stats is saved in lh.aparc_lgi.stats file. By default, its
calculating LGI values of 35 areas using *Desikan-Killiany Atlas *but I am
interested in calculating LGI values using Yeo atlas of 7 networks. I was
wondering how can I change the default atlas to Yeo atlas to get LGI value
for each subject.

Thanks a lot.