getPathwayInfo-methods: Get KEGG pathway info

In KEGGgraph: KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor

Description

KEGG stores additional information of the pathways in their KGML files, which can be extracted by this function.

The method returns the attributes of the pathway including its full title, short name, organism, image file link (which can be downloaded from KEGG website) and web link.

Methods

object = "KEGGPathway"

An object of KEGGPathway-class

Examples

sfile <- system.file("extdata/hsa04010.xml",package="KEGGgraph")
pathway <- parseKGML(sfile)
getPathwayInfo(pathway)

Example output

Attaching package: 'KEGGgraph'

The following object is masked from 'package:graphics':

    plot

[ Title ]: MAPK signaling pathway
[ Name ]: path:hsa04010
[ Organism ]: hsa
[ Number ] :04010
[ Image ] :http://www.genome.jp/kegg/pathway/hsa/hsa04010.gif
[ Link ] :http://www.genome.jp/dbget-bin/show_pathway?hsa04010

KEGGgraph documentation built on Nov. 8, 2020, 5:42 p.m.