Dear Tamer,

Right, those atlases are both defined in MNI-space, so naturally they will not be aligned to subject-space data. I personally find it simpler to run analyes in MNI-space and then bring back any results of interest to subject-space when necessary, compared to keeping the analyses in subject-space and bringing any necessary MNI-space templates or masks to each individual's space. See for example this thread for an example of how to bring back results from MNI-space back to subject-space. 

Hope this helps

Alfonso

Originally posted by Tamer Gezici:

Dear Alfonso,

 

Thank you so much for your help so far. The analysis worked fine, but I noticed that the CONN's network and atlas ROIs do not match the subject space.

Is there a way to denormalize these ROIs using CONN, or should I denormalize these myself and set them as a subject specific ROI manually?