I am not sure whether this type of post is appropriate but I couldn't get a straightforward answer so here goes:

I am currently following this tutorial (https://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/WORKSHOP/2013/Miller/Miller1_ComparingMouseAndHumanBrain.pdf) that enables comparing and contrasting of two networks. On page 12, the tutorial states that kME (module membership) values of the other network can be calculated using the module assignments from the reference network. I am presuming that the module assignments refer to which module each gene is assigned to in the reference network. However, to calculate the module membership values using the provided "signedKME" function, it requires the module eigengene values. This does not really make sense to me because module eigengene values are not the same as module assignments. 

I am posting this in the hope that somebody else who has followed this tutorial successfully has an answer to my question or maybe the authors of WGCNA have some ideas. Any help would greatly be appreciated.

If my question is unclear, please tell me so I can clarify. Thanks!