Hopefully this should be quite an easy question to answer. I've produced consensus eigengene modules and network modules according to the instructions on the UCLA site. The earlier part of my study was looking at differential gene expression between 3 different conditions and I'm quite keen to see whether there is an over representation of DEGs within the different networks that I found. I'm new to WGCNA analysis and bioinformatics in general, so a way of looking at this problem didn't occur to me immediately.
Has anyone else done this and got any advice on how I might go about doing it?