Function reference • fedup

All functions
`geneDouble`	Example list of a background set and two sets of test genes to use for enrichment analysis.
`geneMulti`	Example list of a background set and multiple sets of test genes to use for enrichment analysis.
`geneSingle`	Example list of a background set and single set of test genes to use for enrichment analysis.
`pathwaysGMT`	Named list of human pathway annotations obtained from a GMT file.
`pathwaysTXT`	Example list of SAFE terms obtained from a TXT file.
`pathwaysXLSX`	Example list of SAFE terms obtained from a XLSX file.
`plotDotPlot()`	Visualizes fedup enrichment and depletion results using ggplot.
`plotFemap()`	Draws a network representation of overlaps among pathway enrichment results using EnrichmentMap (EM) in Cytoscape.
`prepInput()`	Prepares input gene list for runFedup.
`readPathways()`	Returns a list of pathways from various file formats.
`runFedup()`	Runs pathway enrichment and depletion analysis using a Fisher's exact test.
`writeFemap()`	Writes an enrichment dataset file for use in Cytoscape EnrichmentMap.
`writePathways()`	Writes a set of pathways (list of vectors) to a GMT file.

Reference