R dendrogram by cluster

Question

[oselm]

Hi all,

I am using R to plot a dendrogram of a hierarchial clustering.

I have realised a hierarchical clustering of ~3000 elements. The plot of the corresponding tree is obviously super messy. These 3000 elements are clustered in 20 groups using the cutree function. What I want is to plot the tree by cluster (i.e. truncated at the nodes where each cluster originate labeled appropriately by cluster => a tree with 20 terminal leaves).

Thanks

O.

Answer 1

[Jake Warner]

collapse_branch() in the package dendextend should do what you're looking for. https://cran.r-project.org/web/packages/dendextend/vignettes/introduction.html

[Jake Warner]

Also take a look at the part about using dynamicTreeCut() and removing the labels, while printing a color bar. That might look nicer than cutting off all of the leaves.