I have followed to typical WGCNA workflow and produced an eigengene network for the consensus modules.
However, after TopGO analysis I have identified some interesting modules. Instead of producing a noisy plot with all my modules - is there a way to only plot modules for my selected ones?
Here's my code for the standard plot:
plotEigengeneNetworks( bnet$multiMEs, moduleColors, letterSubPlots = FALSE, Letters = NULL, excludeGrey = TRUE, greyLabel = "grey", plotDendrograms = TRUE, plotHeatmaps = TRUE, setMargins = TRUE, marDendro = NULL, marHeatmap = NULL, colorLabels = TRUE, signed = TRUE, heatmapColors = NULL, plotAdjacency = TRUE, printAdjacency = FALSE, cex.adjacency = 0.9, coloredBarplot = TRUE, barplotMeans = TRUE, barplotErrors = FALSE, plotPreservation = "standard", zlimPreservation = c(0, 1), printPreservation = FALSE, cex.preservation = 0.9 )