Tutorial for the WGCNA package for R II. Consensus network analysis of liver expression data, female and male mice 4. Relating consensus modules to external microarray sample information and exporting network analysis results

# Display the current working directory getwd(); # If necessary, change the path below to the directory where the data files are stored. # "." means current directory. On Windows use a forward slash / instead of the usual \. workingDir = "."; setwd(workingDir); # Load the WGCNA package library(WGCNA) # The following setting is important, do not omit. options(stringsAsFactors = FALSE); # Load the data saved in the first part lnames = load(file = "Consensus-dataInput.RData"); #The variable lnames contains the names of loaded variables. lnames # Also load results of network analysis lnames = load(file = "Consensus-NetworkConstruction-auto.RData"); lnames exprSize = checkSets(multiExpr); nSets = exprSize$nSets;