I'm not sure I understand what you mean by that. Your inflated brain 
just needs to be inflated a little more to get the folds out of it. I 
cannot tell whether this is sufficient or not. I found that I had to 
iterate many times (on the order of 30) to get stable results. This is 
quite burdensome, esp with 86 subjects. Have you tried using fsaverage_sym?

doug


On 10/01/2013 05:59 AM, amirhossein manzouri wrote:
> Dear FS experts,
> I want to perform asymmetry study in a group of subjects. I have 
> created myatlas.i3 from my data(86) based on the procedure from Xhemi 
> page and tksurfer lh inflated of both fsaverage and myatlas image is 
> attached! it has shown that my atlas is smaller in general and larger 
> in temporal lobe! I wonder if this is correct and I can proceed to 
> compare left and right Hemispheres?
>
> -- 
> Best regards,
> Amirhossein Manzouri
>
>
>
>
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-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
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