This post is about Dynamic Tree Cut, the method used, together with hierarchical clustering, to identify modules (clusters) in WGCNA. To put this post in context, in WGCNA, through several steps, one constructs a variable-variable similarity matrix which is then used for clustering. (The clustering similarity is usually the Topological Overlap Matrix, TOM, but it … Continue reading Why WGCNA modules don’t always agree with the dendrogram? →