getEntryID-methods: Get entry ID for single or list of KEGGNode or KEGGedge...

In Accio/KEGGgraph: KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor

Get entry ID for single or list of KEGGNode or KEGGedge object(s)

Description

The method extracts EntryIDs from KEGGNode-class or KEGGEdge-class object(s).

In case of KEGGEdge-class objects, the entryID of the nodes involved in the binary are returned as a vector in the order specified by the direction of the relation, that is, if the edge is defined as A->B, then the entryID returned from the edge equals to c(getEntryID(A), getEntryID(B)).

Methods

obj = "KEGGEdge"

Object of KEGGEdge-class

obj = "list"

A wrapper for list of KEGGNode-class or KEGGEdge-class objects

Author(s)

Jitao David Zhang mailto:[e-mail]

References

KGML Document Manual https://www.genome.jp/kegg/docs/xml/

Examples

sfile <- system.file("extdata/hsa04010.xml",package="KEGGgraph")
pathway <- parseKGML(sfile)

nodes <- nodes(pathway)
node <- nodes[[7]]
getEntryID(node)

edges <- edges(pathway)
edge <- edges[[7]]
getEntryID(edge)

getEntryID(nodes[1:4])
getEntryID(edges[1:4])

Accio/KEGGgraph documentation built on Jan. 13, 2023, 1:03 p.m.