Calculate cortical surface area using FreeSurfer

From Brain Mapping

1. Run Freesurfer's recon-all command on your high-resolution structural scan (e.g. MPRAGE).

• Note: this script is huge and summons ~30 subscripts. It takes about 30 hours to run. Here is a description of the workflow: http://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferAnalysisPipelineOverview

2. In the /stats directory, the lh.aparc.stats and rh.aparc.stats files contain the surface areas for all cortical subregions determined by Freesurfer's parcellation program. Additional regional stats include gray matter volume and average thickness. This stats can be summed in order to obtain subject totals.