getDisplayName-methods {KEGGgraph} | R Documentation

## Get a character string as label for display

### Description

In KGML files, 'graph' element has a 'name' attribute to store the displaying name of a node, which is straighforward for end users. For example, biologists have no idea about a node 'hsa:1432' but its display name 'MAPK14' helps them to link this node to their knowledge. This method extract DisplayName from graph objects for KEGGNode and graph, where the method for graph returns the display names of its nodes.

### Methods

object = "KEGGNode"
  An object of `KEGGNode-class`
object = "graph"
  A KEGG graph object

### Author(s)

Jitao David Zhang mailto:j.zhang@dkfz.de

### References

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

### Examples

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

    nodes <- nodes(pathway)
    subnodes <- nodes[10:15]

    sapply(subnodes, getDisplayName)
    ## compare them with getName, one 'displayName' may correspond to many paralogues
    sapply(subnodes, getName)

[Package KEGGgraph version 1.1.0 Index]