[Freesurfer] automatic reconstruction of abnormal brains

Hi all, I am starting a project analyzing patients with cranial deformities. How robust is the automatic cortical reconstruction process - i.e., would it be able to handle deformed skulls? Similar to this picture: http://upload.wikimedia.org/wikipedia/commons/1/1f/Single_suture_synostosis.png

Re: [Freesurfer] LGI analysis of single subject

Hi Marie - Thanks for your response. After sending my email I found the hemisphere average values, but the values at each vertex and in each ROI will be very helpful! I tried the command you provided in tkmedit and it looks perfect - thanks! But when I try what I think is the corresponding comma

[Freesurfer] GI analysis of single subject

cts, but I'm wondering if it's possible to get numerical data on a single subject. For instance: average GI in a given ROI, global GI, distribution (min, max, std dev, etc.). If nothing else, can I get the numerical values for each vertex? Thanks for your help!