KEGGNode-class {KEGGgraph} | R Documentation |
The class to present 'entry' element in KGML files and nodes in KEGG graphs
Objects can be created by calls of the function parseEntry
and is not intended to be directly created by users.
entryID
:KEGGpathway2Graph
function, the unique
KEGGID will replace the default integer as the new entryID, which is
unique in biological context name
:type
:data(KEGGNodeType)
to see available values link
:reaction
:map
:displayName
:signature(object = "KEGGNode")
: get
display name signature(obj = "KEGGNode")
: get entryID,
in case of gene-expanded graphs this is the same as getKEGGIDsignature(object = "KEGGNode")
: get KEGGIDsignature(object = "KEGGNode")
: get the type of
the nodesignature(object = "KEGGNode")
: replace name signature(obj = "KEGGNode")
: returns
entryID (the same as getEntryID
), for compatibility with KEGGGroup-class
signature(object = "KEGGNode")
: show method Jitao David Zhang mailto:j.zhang@dkfz.de
KGML Document manual http://www.genome.jp/kegg/docs/xml/
## We show how to extract information from KEGGNode object sfile <- system.file("extdata/hsa04010.xml",package="KEGGgraph") pathway <- parseKGML(sfile) ns <- nodes(pathway) node <- ns[[1]] show(node) getName(node) getDisplayName(node) getEntryID(node) getKEGGID(node)