Why not just compute the difference in the lh and rh stats tables? You don't need to map one hemi to another. But if this is what you want to do, try looking in the recon-all.log file for the mris_anatomical_stats command that generates the ?h.aparc.stats

On 09/28/2016 07:42 PM, Ali-Reza Mohammadi-Nejad wrote:

Dear Freesurfer experts

Based on the FS wiki, I calculated the cortical thickness difference between the LH and RH of a subject in subject's native surface. Now, I want to use FS commands to extract the information such as "?h.aparc.stats" for this difference map (LH - RH). Now this difference map is saved in a .mgh file. I think, I can use "mris_anatomical_stats" command for this propose. But, based on the help of this command, I did not find any .mgh file as an input. Therefore, would you please help me to create such stats file? Thank you very much for your help Best regards, Alireza

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