catplot.GSEA.2way.vs.random: Compare 2 GSEA runs via CAT plots & estimate the expected...

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

Description

You should probably use catplot.GSEA.random instead

Usage

catplot.GSEA.2way.vs.random(x, y, B = 100, sizes = NULL,
  sizes.random = sizes, random.col = "lightgrey", col = 1,
  proportion = FALSE, add = FALSE, plot.column = 1, pch = 1,
  main = "")

Arguments

x	a GSEA object
y	a GSEA object
B	the number of permutations. default=100
sizes	Controls the granularity of the CAT plot. see details
sizes.random	Controls the granulatity of the randomised CAT plot. Since this gets done B times, this setting can really impact the speed of this function. See details.
random.col	the fill colour for the random background
col	the pch colour
proportion	if TRUE, x-axis is proportion of all genesets, if FALSE (default), the number of genesets is plotted.
add	logical: add to the current plot (TRUE), or create a new plot (FALSE).
plot.column	if add=TRUE, which column of plots does the current plot fit into? see mfg setting in par
pch	the print character. see par
main	the plot title

Author(s)

Mark Cowley

See Also

catplot.vs.random, catplot.GSEA

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