dendextend (version 0.14.2)

all_couple_rotations_at_k: Rotate tree branches for k

Description

Given a tree and a k number of clusters, the tree is rotated so that the extra clusters added from k-1 to k clusters are flipped. This is useful for finding good trees for a tanglegram.

Usage

all_couple_rotations_at_k(dend, k, dend_heights_per_k, ...)

Arguments

dend

a dendrogram object

k

integer scalar with the number of clusters the tree should be cut into.

dend_heights_per_k

a named vector that resulted from running heights_per_k.dendrogram. When running the function many times, supplying this object will help improve the running time if using the

...

not used

Value

• A list with dendrogram objects with all the possible rotations for k clusters (beyond the k-1 clusters!).

See Also

tanglegram, match_order_by_labels, entanglement, flip_leaves.

Examples

dend1 <- as.dendrogram(hclust(dist(USArrests[1:5,])))
dend2 <- all_couple_rotations_at_k(dend1, k=2)[[2]]
tanglegram(dend1,dend2)
entanglement(dend1,dend2, L = 2) # 0.5

dend2 <- all_couple_rotations_at_k(dend1, k=3)[[2]]
tanglegram(dend1,dend2)
entanglement(dend1,dend2, L = 2) # 0.4

dend2 <- all_couple_rotations_at_k(dend1, k=4)[[2]]
tanglegram(dend1,dend2)
entanglement(dend1,dend2, L = 2) # 0.05