WGCNA (version 0.96)

plotColorUnderTree: Plot color rows under a dendrogram

Description

Plot color rows encoding information about objects in a clustering dendrogram, usually below the dendrogram.

Usage

plotColorUnderTree(dendro, colors, rowLabels = NULL, cex.rowLabels = 1, colorText = NULL, ...)

Arguments

dendro

A dendrogram such as returned by hclust.

colors

Coloring of objects on the dendrogram. Either a vector (one color per object) or a matrix (can also be an array or a data frame) with each column giving one color per object. Each column will be plotted as a horizontal row of colors under the dendrogra

rowLabels

Labels for the colorings given in colors. The labels will be printed to the left of the color rows in the plot. If the argument is given, it must be a vector of length equal to the number of columns in colors. If not given,

cex.rowLabels

Font size scale factor for the row labels. See par.

colorText

Optional labels to identify colors in the color rows. If given, must be of the same dimensions as colors. Each label that occurs will be displayed once.

...

Other parameters to be passed on to the plotting method (such as main for the main title etc).

Value

• None.

Details

It is often useful to plot dendrograms of objects together with additional information about the objects, for example module assignment (by color) that was obtained by cutting a hierarchical dendrogram or external color-coded measures such as gene significance. This function provides a way to do so. The calling code should section the screen into two (or more) parts, plot the dendrogram (via plot(hclust)) in the upper section and use this function to plot color annotation in the order corresponding to the dendrogram in the lower section.

See Also

cutreeDynamic for module detection in a dendrogram; plotDendroAndColors for automated plotting of dendrograms and colors in one step.