I have not read that paper, but I think it can do what you want. Have 
you seen?
http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastFunctionalConnectivityWalkthrough

On 11/22/2014 11:55 AM, std...@virgilio.it wrote:
> Dear all,
>
> is FS-FAST able to perform seed-based fcMRI analysis between thalamus 
> and cortex (e.g. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2852505/)?
>
> Thanks for your work,
>
>
> Stefano
>
>
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