RbioRXN (version 1.5.1)

get.metacyc.reaction.byId: Download given MetaCyc reaction via BioCyc web services

Description

This function downloads and parses given MetaCyc reaction in BioPAX level 3 via MetaCyc web services (http://biocyc.org/web-services.shtml), and generate data.frame() object

NOTE: The MetaCyc server is occasionally unavailable, so this function accesses our own server as additional resource after trying original server. Our server may not contain latest data.

Usage

get.metacyc.reaction.byId(metacycId)

Arguments

metacycId

MetaCyc ID: single or multiple entries in vector

Value

data.frame() object where data fields include

MetaCyc

MetaCyc ID

name

Reaction equation with chemical standard name

ec_number

E.C. number

name_id

Reaction equation with MetaCyc compound ID

References

MetaCyc download page: http://biocyc.org/download.shtml MetaCyc web services: http://biocyc.org/web-services.shtml

Examples

# Not run:

##  get.metacyc.reaction.byId("RXN-13970")
##  get.metacyc.reaction.byId("SERINE--PYRUVATE-AMINOTRANSFERASE-RXN")
##  get.metacyc.reaction.byId("RXN-13759")
##  get.metacyc.reaction.byId("RXN-14352")
##  get.metacyc.reaction.byId("TRANS-RXN-220")
##  get.metacyc.reaction.byId("RXN-12549")