[Freesurfer] One Way Anova and multiple comparisons

Hi to everybody, I am a very inexperienced users of FreeSurfer. I have 3 groups of subjects and I have run recon-all and checked the results for all the subjects (very good results).

Now what I need to do, is to calculate the differences in the regional cortical thickness between these 3 groups (using age and gender as covariates) and to perform multiple comparisons, in order to detect possible local differences in cortical thickness.

Is it possible to perform this kind of analysis also for comparing surfaces between different groups?

Could you give me a short "pipeline" about the steps I need to do, or redirect me to some focused documentation?

Thank's.

Marco