merge_dendrogram: Merge Dendrograms

In zhongmicai/complexHeatmap: Make Complex Heatmaps

Description

Merge Dendrograms

Usage

merge_dendrogram(x, y, only_parent = FALSE, ...)

Arguments

x	The parent dendrogram.
y	The children dendrograms. They are connected to the leaves of the parent dendrogram. So the length of y should be as same as the number of leaves of the parent dendrogram.
only_parent	Whether only returns the parent dendrogram where the height and node positions have been adjusted by children dendrograms.
...	Other arguments.

Details

Do not retrieve the order of the merged dendrogram. It is not reliable.

Examples

m1 = matrix(rnorm(100), nr = 10)
m2 = matrix(rnorm(80), nr = 8)
m3 = matrix(rnorm(50), nr = 5)
dend1 = as.dendrogram(hclust(dist(m1)))
dend2 = as.dendrogram(hclust(dist(m2)))
dend3 = as.dendrogram(hclust(dist(m3)))
dend_p = as.dendrogram(hclust(dist(rbind(colMeans(m1), colMeans(m2), colMeans(m3)))))
dend_m = merge_dendrogram(dend_p, list(dend1, dend2, dend3))
grid.dendrogram(dend_m, test = TRUE)

dend_m = merge_dendrogram(dend_p, list(dend1, dend2, dend3), only_parent = TRUE)
grid.dendrogram(dend_m, test = TRUE)

require(dendextend)
dend1 = color_branches(dend1, k = 1, col = "red")
dend2 = color_branches(dend2, k = 1, col = "blue")
dend3 = color_branches(dend3, k = 1, col = "green")
dend_p = color_branches(dend_p, k = 1, col = "orange")
dend_m = merge_dendrogram(dend_p, list(dend1, dend2, dend3))
grid.dendrogram(dend_m, test = TRUE)

zhongmicai/complexHeatmap documentation built on May 7, 2019, 6:11 a.m.