Hi everyone,

I'm new to functional connectivity analysis. So far, I've been working on task-based fMRI analyses with FEAT (both subject & group analyses) and I've been doing fine. I joined this project to learn some new techniques of fMRI analysis, but I've encountered some problems. I've downloaded the New_York_b Lite datasets and I've managed to run the fcon_1000 scripts without technical problems. I have all the output files, but I don't really know what to do with them now. Here is what I would like to do:

I'd like to look for the activated networks in the Broca's area in the r-fMRI scan and view them in the similar way to the way FEAT gives its reports, so I can easily see the activations, map them onto brain atlases, get the group mean and inter-subject differences. From what I understand, I have to create a Broca's seed using AFNI tools and use this seed in RSFC fcon script. That I can do. But what next? The problem is that I don't exactly understand what I get with the results of the RSFC analysis done by the script, and I can't find any relevant explanation as to what the resulting .nii file contains. Any information on what to do next to reach my goal will be appreciated.

Thanks,
Michal