R: Plots the position of a subset of samples in the histogram of...
plotPosOneAnnotLevInComp_ggplot
R Documentation
Plots the position of a subset of samples in the histogram of all samples using ggplot2.
Description
Given a sample annotation (e.g a tumor specific stage),
this function plots the positions of the corresponding
samples (e.g the subset of samples having this tumor
stage) within the histogram of the global sample
contributions. This function is called by
plotPosOneAnnotInComp_ggplot and is only
dedicated to the plot of the histogram using the package
ggplot2.
a data.frame of dimensions 'samples x
annotations' with one column corresponding to the
component to trait ("comp" column) and one column
corresponding to the groups of interest ("interest"
column)
colAnnot
the name of a column of the argument
annot with the groups of interest
selLev
the name of the group of interest
comp
a vector of sample contributions
colSel
the colour of the histogram of the group of
interest, default is "red"
colAll
the colour of the global histogram
geneExpr
a vector of values representative of the
component, e.g the expression of the witness gene of the
component
geneRef
the ID of the feature/gene geneExpr
corresponds to, e.g the name of the witness gene
title
A title for the plot
binwidth
set the width of the bins, see
geom_histogram
...
other parameters given to
geom_histogram
Value
An object of class ggplot2 containing the histogram