On 10/08/2016 02:43 AM, Anders Hougaard wrote:
> Dear Freesurfers,
>
> Please see the attached image.
> It shows inflated fsaverage surface with gamma.mgh overlaid.
> Gamma.mgh is from one contrast of a standard group analysis of 
> cortical thickness (two groups A and B, two contrasts A>B and B>A).
>
> 1) Is it correct to interpret the gamma values as between-group 
> difference of cortical thickness in mm?
It depends on how you set up the contrast. If it is a simple A vs B, 
then yes, mm is correct.
>
> 2) I would like to reproduce the histogram in another software. Is it 
> possible to extract the gamma values for each vertex for this purpose?
You can do it in matlab easily enough, eg,
gamma = MRIread('gamma.mgh');
gamma.vol will be the pixel values
>
> All the best,
> Anders
>
>
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