identify.dendrogram: Identify Clusters in a Dendrogram (not hclust)

In dendextend: Extending 'dendrogram' Functionality in R

Identify Clusters in a Dendrogram (not hclust)

Description

Just like identify.hclust: reads the position of the graphics pointer when the (first) mouse button is pressed. It then cuts the tree at the vertical position of the pointer and highlights the cluster containing the horizontal position of the pointer. Optionally a function is applied to the index of data points contained in the cluster.

Usage

## S3 method for class 'dendrogram'
identify(
  x,
  FUN = NULL,
  N = 20,
  MAXCLUSTER,
  DEV.FUN = NULL,
  horiz = FALSE,
  stop_if_out = FALSE,
  ...
)

Arguments

x	a dendrogram object.
FUN	(optional) function to be applied to the index numbers of the data points in a cluster (see 'Details' below).
N	the maximum number of clusters to be identified.
MAXCLUSTER	the maximum number of clusters that can be produced by a cut (limits the effective vertical range of the pointer).
DEV.FUN	(optional) integer scalar. If specified, the corresponding graphics device is made active before FUN is applied.
horiz	logical (FALSE), indicating if the rectangles should be drawn horizontally or not (for when using plot(dend, horiz = TRUE) ) .
stop_if_out	logical (default is FALSE). This default makes the function NOT stop if k of the locator is outside the range (this default is different than the behavior of the identify.hclust function - but it is nicer for the user.).
...	further arguments to FUN.

Details

By default clusters can be identified using the mouse and an invisible list of indices of the respective data points is returned. If FUN is not NULL, then the index vector of data points is passed to this function as first argument, see the examples below. The active graphics device for FUN can be specified using DEV.FUN. The identification process is terminated by pressing any mouse button other than the first, see also identify.

Value

(Invisibly) returns a list where each element contains a vector of data points contained in the respective cluster.

Source

This function is based on identify.hclust, with slight modifications to have it work with a dendrogram, as well as adding "horiz"

See Also

identify.hclust, rect.hclust, order.dendrogram, cutree.dendrogram

Examples

## Not run: 
set.seed(23235)
ss <- sample(1:150, 10)
hc <- iris[ss, -5] %>%
  dist() %>%
  hclust()
dend <- hc %>% as.dendrogram()

plot(dend)
identify(dend)

plot(dend, horiz = TRUE)
identify(dend, horiz = TRUE)

## End(Not run)

dendextend documentation built on Oct. 13, 2024, 1:06 a.m.