As a beginner with WGCNA I'm using this tutorial for my data analysis: http://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/FemaleLiver-02-networkConstr-man.pdf
In the section 2.b.4 Clustering using TOM
# Call the hierarchical clustering function
geneTree = hclust(as.dist(dissTOM), method = "average");
# Plot the resulting clustering tree (dendrogram)
plot(geneTree, xlab="", sub="", main = "Gene clustering on TOM-based dissimilarity",
labels = FALSE, hang = 0.04);
I'm not getting the right clusters on "Gene clustering on TOM−based dissimilarity"
My dendrogram looks like this:
I would really appreciate, if somebody could advice me what I could change in this hierarchical clustering.. or etc.?