KEGGReaction-class {KEGGgraph} | R Documentation |
A class to present 'reaction' elements in KGML files
Objects can be created by calls of the function parseReaction
.
name
:"character"
the KEGGID of
this reaction, e.g. "rn:R02749"type
:"character"
the type of
this reaction, either 'reversible' or 'irreversible'substrateName
:"character"
,
KEGG identifier of the COMPOUND database or the GLYCAN database
e.g. "cpd:C05378"substrateAltName
:"character"
alternative name of its parent substrate element productName
:"character"
specifies the KEGGID of the productproductAltName
:"character"
alternative name of its parent product element signature(object = "KEGGReaction")
: show methodsignature(object = "KEGGReaction")
: get the
KEGGID of the reactionsignature(object = "KEGGReaction")
: get the
type of the reactionsignature(object = "KEGGReaction")
: get the
name of substratesignature(object = "KEGGReaction")
: get the
name of productJitao David Zhang mailto:j.zhang@dkfz.de
KGML Document Manual http://www.genome.jp/kegg/docs/xml/
## We show how to extract reactions from a 'KEGGPathway' object mapfile <- system.file("extdata/map00260.xml", package="KEGGgraph") maptest <- parseKGML(mapfile) mapReactions <- getReactions(maptest) ## More details about reaction reaction <- mapReactions[[1]] getName(reaction) getType(reaction) getSubstrate(reaction) getProduct(reaction)