get.genes.by.pathway: Client-side interface to obtain the KEGG ids for genes that...

In kozo2/keggapi: Client-side REST access KEGG

Description

Given a KEGG pathway identifier, the functions query the KEGG PATHWAY database for all the genes that that are involved in the interactions in the specified pathway.

Usage

get.genes.by.pathway(pathway.id)

Arguments

pathway.id

pathway.id a character string for a KEGG pathway id. KEGG pathway ids consist of the string path followed by a colon, a three-letter code for the organism of concern, and then a number (e. g. "path:eco00020"). The three-letter organism code consists of the first letter of the genus name and the first two letters of the species name of the scientific name of the organism of concern

Details

KEGG pathway identifiers for a given organism can be obtained using function list.pathways

Value

The functions return a table of KEGG gene ids found in the pathway

Author(s)

Kozo Nishida

References

http://www.kegg.jp/kegg/docs/keggapi.html

See Also

list.pathways

Examples

        genes <- get.genes.by.pathway("path:eco00020")

kozo2/keggapi documentation built on May 20, 2019, 1:11 p.m.