Soraya.heatmap: Soraya.heatmap

In jenzopr/hlap: Hoelpis library of amazing plots

Description

Creates a heatmap with two dedrograms for any numerical matrix.

Usage

Soraya.heatmap(data, sample.names=NULL, gene.names=NULL, color=colorRampPalette(c("red", "yellow", "green"))(n = 299), agglomeration.method="ward.D2", distance.method="euclidean", dendro.upper.size=4, dendro.right.size=4, htheme=soraya.heatmap.theme, dtheme=soraya.dendro.theme)

Arguments

data	A numerical matrix.
sample.names	A character vector with sample names. For each data column, a sample name should be given.
gene.names	A character vector with gene/protein names. For each data row, a name should be given.
color	A character vector containing color codes, as returned from brewer.pal() or colorRampPalette().
agglomeration.method	The agglomeration method to be used. This should be (an unambiguous abbreviation of) one of "ward.D", "ward.D2", "single", "complete", "average" (= UPGMA), "mcquitty" (= WPGMA), "median" (= WPGMC) or "centroid" (= UPGMC).
distance.method	The distance measure to be used. This must be one of "euclidean", "maximum", "manhattan", "canberra", "binary" or "minkowski". Any unambiguous substring can be given.
dendro.upper.size	Size of the upper dendrogram, in cm.
dendro.right.size	Size of the right dendrogram, in cm.
htheme	An optional ggplot theme that defines the inner heatmap details.
dtheme	An optional ggplot theme that defines the dentrogram details.

Value

A ggplot2 plot grob ready to be plotted with grid.draw().

Author(s)

Soraya Hoelper and Jens Preußner.

Examples

##---- Load the data ----
tbd

jenzopr/hlap documentation built on May 19, 2019, 5:07 a.m.