RbioRXN (version 1.5.1)

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)