you are doing it the right way. There is no difference in the uncorrected analysis. There will be a difference when you correct for multiple comparisons
doug

On 03/14/2014 11:15 AM, amirhossein manzouri wrote:

Dear Experts,
I have read the previous posts in the list regarding restricted ROI analysis. So I generated my label from tksurfer and used that for group difference analysis by adding --label to mri_glmfit, but the result (sig.mgh) seems just a masked version of the analysis including whole brain ( no difference in significance! ). I expected to see a different pattern of significance by limiting the region. Would you please advise if I am doing this in a right way?

Best regards,
Amirhossein Manzouri

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