clusterProfiler (version 3.0.4)

viewKEGG: viewKEGG function is for visualize KEGG pathways works with enrichResult object to visualize enriched KEGG pathway

Description

viewKEGG function is for visualize KEGG pathways works with enrichResult object to visualize enriched KEGG pathway

Usage

viewKEGG(obj, pathwayID, foldChange, color.low = "green", color.high = "red", kegg.native = TRUE, out.suffix = "clusterProfiler")

Arguments

obj

enrichResult object

pathwayID

pathway ID or index

foldChange

fold change values

color.low

color of low foldChange genes

color.high

color of high foldChange genes

kegg.native

logical

out.suffix

suffix of output file

References

Luo et al. (2013) Pathview: an R/Bioconductor package for pathway-based data integration and visualization. Bioinformatics (Oxford, England), 29:14 1830--1831, 2013. ISSN 1367-4803 http://bioinformatics.oxfordjournals.org/content/abstract/29/14/1830.abstract PMID: 23740750