[wiki:FreeSurferWiki top]

Cortical Parcellation

The FreeSurfer utilities ["mris_ca_train"] and ["mris_ca_label"] together implement a technique for automatically assigning a neuroanatomical label to each location on a cortical surface model based on probabilistic information estimated from a manually labeled training set (made using FreeSurfer). This procedure incorporates both geometric information derived from the cortical model, and neuroanatomical convention, as found in the training set. The result is a complete labeling of cortical sulci and gyri.

attachment:annot-sm.jpg

Background

• [https://surfer.nmr.mgh.harvard.edu/ftp/articles/fischl04-parcellation.pdf Automatically Parcellating the Human Cerebral Cortex], Fischl et al., (2004). Cerebral Cortex, 14:11-22.

• <add link to R. Desikan paper>

Utilities

• ["mris_sample_parc"] - samples a volumetric parcellation onto a surface
• ["mris_ca_train"] - creates the reference atlas
• ["mris_ca_label"] - parcellates a cortical surface based on the reference atlas

Atlas

• <discuss default atlas, discuss creation of own atlas>