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Are you sure that you want to compare their thickness with fsaverage? What is 
your research question?

It is more common to compare to a control group with matched demographics.

Tim

> On July 6, 2020 at 12:57 PM Alina Rojas <alinacol...@gmail.com> wrote:
> 
> 
>         External Email - Use Caution        
> 
> Hello Freesurfer Developers,
> 
> I'm attempting to compare the cortical thickness values from the stats 
> (?h.aparc.stats) of a stack of subjects and compare them with fsaverage. With 
> aparcstats2table I did it for my subjects without problem, but the fsaverage 
> folder doesn’t have the ?.h.aparc.stats file. I need it to compare the 
> cortical thickness values of the different regions of the brain from the 
> stack of subjects with fsaverage to see if we have a relevant difference. Do 
> you have a suggestion how I can do it?
> 
> Thanks in advance,
> 
> Alina
> 
> 
> 
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