goplot: goplot

In YuLab-SMU/enrichplot: Visualization of Functional Enrichment Result

goplot

Description

plot induced GO DAG of significant terms

Usage

goplot(
  x,
  showCategory = 10,
  color = "p.adjust",
  layout = "sugiyama",
  geom = "text",
  ...
)

## S4 method for signature 'enrichResult'
goplot(
  x,
  showCategory = 10,
  color = "p.adjust",
  layout = igraph::layout_with_sugiyama,
  geom = "text",
  ...
)

## S4 method for signature 'gseaResult'
goplot(
  x,
  showCategory = 10,
  color = "p.adjust",
  layout = igraph::layout_with_sugiyama,
  geom = "text",
  ...
)

Arguments

x	enrichment result.
showCategory	number of enriched terms to display
color	variable that used to color enriched terms, e.g. pvalue, p.adjust or qvalue
layout	layout of the map
geom	label geom, one of 'label' or 'text'
...	additional parameter

Value

ggplot object

Author(s)

Guangchuang Yu

Examples

## Not run: 
	library(clusterProfiler)
  data(geneList, package = "DOSE")
	de <- names(geneList)[1:100]
	yy <- enrichGO(de, 'org.Hs.eg.db', ont="BP", pvalueCutoff=0.01)
    goplot(yy)
    goplot(yy, showCategory = 5)

## End(Not run)

YuLab-SMU/enrichplot documentation built on Dec. 18, 2024, 11:52 p.m.