EnrichedGSEView {MAGeCKFlute}R Documentation

View enriched terms in GSEA

Description

Grid plot for enriched terms in GSEA

Usage

EnrichedGSEView(enrichment, top = 5, bottom = 5, charLength = 40,
  main = NULL, filename = NULL, width = 7, height = 4, ...)

Arguments

enrichment

A data frame of enrichment result, with columns of ID, Description, p.adjust and NES

top

An integer, specifying the number of top enriched terms to show.

bottom

An integer, specifying the number of bottom enriched terms to show.

charLength

Integer, specifying max length of enriched term name to show as coordinate lab.

main

Same as 'title' in 'plot'.

filename

Figure file name to create on disk. Default filename="NULL", which means no output.

width

As in ggsave.

height

As in ggsave.

...

Other available parameters in ggsave.

Value

An object created by ggplot, which can be assigned and further customized.

Author(s)

Wubing Zhang

See Also

EnrichedView

Examples

## Not run: 
    data(geneList, package = "DOSE")
    enrichRes = enrich.GSE(geneList, type = "KEGG", organism="hsa")
    EnrichedGSEView(as.data.frame(enrichRes), main = "GSEA Analysis")

## End(Not run)

[Package MAGeCKFlute version 1.2.3 Index]