I Recently performed WGCNA analysis of microarray dataset. This dataset consists of two following conditions
1) Untreated 2) treated
WGCNA analysis revealed that there 10 co-expression modules. Now I am thinking to identify the significant module among these 10. I went through the tutorials there are two measures Gene significance and Module significance. But these measures are calculated by relating each module with trait file (like phenotypic features or weight and so on). I also want to do this but I donot have any external information to related to expect two condition information like Untreated and treated. Can any body give suggestion how to determine module significance with out external data?
Thanks a lot,