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

In RbioRXN: Process Rhea, KEGG, MetaCyc, Unipathway Biochemical Reaction Data

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

Author(s)

Byoungnam Min <[e-mail]>, Byeonghyuk Park, Kyoung Heon Kim and In-Geol Choi

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")

RbioRXN documentation built on May 29, 2017, 10:56 a.m.