RbioRXN (version 1.3.1)

get.rhea.all: Download current Rhea in data.frame() object

Description

Download current Rhea in BioPAX level 2 and parse to generate data.frame() object

Usage

get.rhea.all()

Value

• data.frame() object where data fields include
• rheaId
  Rhea ID
• reactionType
  BiochemicalReaction or transportReaction
• equationWithCommonName
  Textual reaction equation (compound standard names)
• sameParticipant
  Reactions with the same reactants and products, but different directionalities
• mapped
• formuled
• polymerization
• chemicallyBalanced
• status
• transport
• direction
• classOfReactions
  At least one reaction participant is class compound described in ChEBI
• equationWithChebi
  Reaction equation with ChEBI
• equationParticipant
• crossLinks
  If reaction has cross-link to other databases, new columns are generated such as "MetaCyc", "KEGG" etc

References

Rhea database: http://www.ebi.ac.uk/rhea/home.xhtml

Examples

# Not run: it takes about 20 minutes

##  rhea = get.rhea.all()
##  dim(rhea)              # The number of downloaded reactions
##  head(rhea)