RbioRXN (version 1.3.1)

get.kegg.byId: Download given KEGG REACTION entry using KEGGREST package

Description

By implementing KEGGREST package in Bioconductor (http://www.bioconductor.org/packages/release/bioc/html/KEGGREST.html), retrieve given KEGG REACTION in data.frame() object.

Usage

get.kegg.byId(keggId)

Arguments

keggId

single KEGG REACTION ID (R number) or multiple IDs in vector

Value

• data.frame() object where data fields include,
• ENTRY
  KEGG ID
• NAME
  Enzyme name
• DEFINITION
  Reaction equation with standard compound name
• EQUATION
  Reaction equation with KEGG ID
• ENZYME
  E.C number
• COMMENT
  Comment
• RPAIR
  KEGG RPAIR is a collection of substrate-product pairs (reactant pairs) defined for each reaction in KEGG REACTION
• PATHWAY
  KEGG PATHWAY that this reaction participates
• ORTHOLOGY
  Cross-link to KEGG ORTHOLOGY database
• REMARK
  Usually this column indicates glycan reaction-chemical reaction pair
• REFERENCE
  Publication with PMID, title, and journal name

References

KEGGREST package: http://www.bioconductor.org/packages/release/bioc/html/KEGGREST.html KEGG API: http://www.kegg.jp/kegg/docs/keggapi.html

See Also

get.kegg.all

Examples

# Not run:

##  get.kegg.byId("R00001")                                  # single KEGG ID
##  get.kegg.byId(c("R00001", "R00002", "R00005", "R00006")) # mutiple KEGG IDs