keggDF2graph {keggorth} | R Documentation |
create a graph from a specific data frame format for KEGG orthology
keggDF2graph(df, root="KO.June07root") data(KOgraph)
df |
the data frame |
root |
a name for root node |
the obvious directed graph structure from root to leaf nodes (pathway names) is instantiated for the orthology, nodeData attribute tag is loaded with the numerical tag for the term in KEGG, and nodeData attribute depth is loaded with depth from root
a graphNEL-class
instance
This is only a support function. The graph is serialized in the package data directory.
Vince Carey <stvjc@channing.harvard.edu>
data(keggOrthDF) keggOrthDF[1:5,] data(KOgraph) nodes(KOgraph)[1:4] nodeData(KOgraph,,"tag")[1:5] nodeData(KOgraph,,"depth")[1:5]