plot.gsea2: Plot 2-tailed enrichment results

In fossbert/binilib: Carlo's little helper

Description

This function generates a plot of the GSEA running sums of two gene sets on a given signature.

Usage

## S3 method for class 'gsea2'
plot(
  gsea2,
  color = c("cornflowerblue", "salmon"),
  legend = TRUE,
  legNames = c("Targets", "pos", "neg"),
  main = "",
  plotSignature = FALSE,
  signatureNames = NULL,
  signatureType = NULL,
  ledge = TRUE,
  fixY = NULL,
  ...
)

Arguments

gsea2	gsea2 object as returned from gsea2T
color	Vector of two components indicating the colors for the negative and positive parts of the regulon
legend	Logical on whether to draw a legend explaining the two parts of the regulon
legNames	Character, defaults to Targets, pos and neg
main	Character vector given as argument for convenience
plotSignature	Logical whether to include a graph on the signature (e.g. t-statistics)
signatureNames	Character vector indicating the conditions being compared. Defaults to NULL. Otherwise a charater vector of length two.
signatureType	Character to indicate the type of gene level statistic (e.g. t-statistic).
ledge	logical whether to plot the leading edge line
fixY	numeric vector specyfying y-axis limits, defaults to NULL Defaults to NULL which will yield a 'signature score' label.
...	Given for compatibility to the plot generic function

Value

Nothing, a plot is generated in the default output device

fossbert/binilib documentation built on April 23, 2021, 10:31 p.m.