plot_gsea.leadingedge.barplot: GSEA Leading Edge analysis: Barplot of number of genesets...

In drmjc/metaGSEA: Meta-analysis of GSEA analyses, including intra- and inter-experiment comparisons

Description

This tool emulates the barplot found in the GSEA Leading Edge Tool. Typically, the user selects a subset of genesets of interest (use gsea.filter, or gsea.split to do this) and then wants to find genes that are present in lots of those genesets. This tool gives you a barplot indicating the number of genesets that each gene was found in.

Usage

plot_gsea.leadingedge.barplot(x, min.count = 0, xlab = "",
  ylab = "Number Of Gene Sets", main = "Leading Edge Barplot",
  horiz = FALSE, col = "blue", cex.names = 0.6, ...)

Arguments

x	a GSEA object. Usually this has been subset to a managable number of genesets
min.count	filter out genes found in only a few genesets. min.count=2 is useful in practice.
xlab	see plot
ylab	see plot
main	see plot
horiz	logical: if TRUE, then the bars will be horizontal; FALSE they are vertical (default).
col	the colour of the bars
cex.names	the character expansion factor of the gene names. see plot
...	additional arguments passed to barplt

Value

invisibly returns the named vector of counts.

Author(s)

Mark Cowley, 2009-10-28

See Also

barplot

drmjc/metaGSEA documentation built on Aug. 8, 2020, 1:53 p.m.