dendextend (version 1.18.1)

cutree_1h.dendrogram: cutree for dendrogram (by 1 height only!)

Description

Cuts a dendrogram tree into several groups by specifying the desired cut height (only a single height!).

Usage

cutree_1h.dendrogram(
  dend,
  h,
  order_clusters_as_data = TRUE,
  use_labels_not_values = TRUE,
  warn = dendextend_options("warn"),
  ...
)

Value

cutree_1h.dendrogram returns an integer vector with group memberships

Arguments

dend

a dendrogram object

h

numeric scalar (NOT a vector) with a height where the dend should be cut.

order_clusters_as_data

logical, defaults to TRUE. There are two ways by which to order the clusters: 1) By the order of the original data. 2) by the order of the labels in the dendrogram. In order to be consistent with cutree, this is set to TRUE.

use_labels_not_values

logical, defaults to TRUE. If the actual labels of the clusters do not matter - and we want to gain speed (say, 10 times faster) - then use FALSE (gives the "leaves order" instead of their labels.).

warn

logical (default from dendextend_options("warn") is FALSE). Set if warning are to be issued, it is safer to keep this at TRUE, but for keeping the noise down, the default is FALSE.

...

(not currently in use)

Author

Tal Galili

See Also

hclust, cutree

Examples

hc <- hclust(dist(USArrests[c(1, 6, 13, 20, 23), ]), "ave")
dend <- as.dendrogram(hc)
cutree(hc, h = 50) # on hclust
cutree_1h.dendrogram(dend, h = 50) # on a dendrogram

labels(dend)

# the default (ordered by original data's order)
cutree_1h.dendrogram(dend, h = 50, order_clusters_as_data = TRUE)

# A different order of labels - order by their order in the tree
cutree_1h.dendrogram(dend, h = 50, order_clusters_as_data = FALSE)


# make it faster
if (FALSE) {
library(microbenchmark)
microbenchmark(
  cutree_1h.dendrogram(dend, h = 50),
  cutree_1h.dendrogram(dend, h = 50, use_labels_not_values = FALSE)
)
# 0.8 vs 0.6 sec - for 100 runs
}