I apologise for what may be a very stupid question, but I am currently trying to interpret my WGCNA results, and I could not find anything online about what the following means.
I am interested in this module turquoise (Module-trait relationship table). There is a fairly weak correlation between this module and traits "3" and "6". However, when I plot gene significance (the degree of association between genes in the turquoise module with traits 3 and 6) vs module membership (the degree each gene is associated with these modules), I get very dissimilar degrees of association.
For example, for trait 3, there really is nothing there (as expected, based on the trait-relationship association described on the table). However, for trait 6, there is a strong correlation between GS and MM - but why is this not reflected on the trait/module correlation calculated in the trait-module relationship table (link above)? Is WGCNA correcting for something else when the table is calculated?
I hope this makes sense!