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Hi! 

I'm taking the liberty of writing another email on this subject, as I didn't get a reply to my previous email.

My colleagues and I performed a general linear model with FreeSurfer mri_glmfit for whole brain analysis in intergroup comparison (g2v1) with a Monte-Carlo correction. 

I'd like to get the effect size of the analysis and I was wondering how could I get the eta squared or R²?

I also saw that the gamma.mgh file was the contrast effect size. Could this be used as an effect size for this type of analysis? 

I believe an equation such as : pseudo_rsquared = (1 - model.llf / model.llnull) could be helpful but I wonder how to include this in the mri_glmfit script. 

Thank you in advance! 

Lyna El Haffaf

University of Montreal

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