I have a gene coexpression network and i want to analyse and visualize the clusters of the network (i.e show different clusters in different colours). I have used R studio and cytoscape for the network construction and analysis, so far. Although i have managed to define the modules of the network with different algorithms, i couldn't find a proper way to visualize the clusters. Cytoscape plugins Glay and ClusterMaker seemed very helpful but unfortunately they are not compatible with cytoscape 2.8.
Could you recommend similar cytoscape plugins, r packages and/or any other software for this kind of analysis?
Thanks in advance, Ane