Dear FreeSurfer team,
I'm doing a structural analysis with around 20 subjects and I'm specifically interested in the areas premotor cortex and primary motor cortex. By matlab analysis I've found a very strong statistical significant difference in the cortical thickness when comparing these two areas with all subjects (data extracted from FreeSurfer recon-all pipeline). I would like to visualize these results on the surface of fsaverage, and I'm familiar with the FreeSurfer group analysis pipeline. So far I've simply made a OSGM group analysis and visualized these results on the fsaverage in a premade label of premotor cortex and primary motor cortex and correlated for multiple comparisons using your precomputed monte carlo simulation - but this doesn't make it.
Do you guys have a clever way to visualize these results in FreeSurfer? I have one group and would like to visualize the difference between two areas. I've thought about presenting each subject two times in the FSGD-file (primary motor cortex and premotor cortex), but this isn't possible and seems as a clumsy way to solve this problem.
Please let me know if my problem is incomprehensible!
Best, Silas