Hello Conn experts, 

I'm running a between-groups analyses on task-based functional connectivity and am interested in a particular network (the AON). In particular, I'd like to see if there are any differences in functional parameters in the AON between groups. I am pretty new to functional connectivity and have several questions!

I have attempted to set up my contrasts following this post (https://www.nitrc.org/forum/message.php?...) -- setting up the between-subjects effects as [1 -1] for the group comparison, selecting my condition, and then hitting "graph theory". 

It seems that the between-source contrast column in the second-level design page doesn't have an effect after I click on graph theory--is this correct?

From the graph theory page, I go to the network nodes, and select my ROIs from my network of interest (8 ROIs). However, when I click on "export data," I get many NaN values for multiple subjects in my .csv file. This does not seem correct. Can someone please explain this to me? (I do not have this problem if I select all of the atlas ROIs as nodes). I have kept the default thresholding values. 

Also, when I select only my 8 ROIs, does this mean that each node will have at most 7 edges (connecting to other nodes I selected), or does this look at how well connected the nodes I selected are, to all other nodes in the brain? 

If I am also interested in how well connected the network is (intra-network) compared to another network, in one group compared to another, what would be the best way to go about this?

Finally, is there a way to export the default ROIs so that I get individual nifti images for each one? (I found them in the conn>rois folder, but it comes with all of them in one file). 

Thanks so much for your help!