keggerize_edges: Add in edges to map documented in other pathways

In uc-bd2k/KEGGlincs: Visualize all edges within a KEGG pathway and overlay LINCS data [option]

Description

For a specific pathway entity(gene), search KEGG databases to see if it has any other documented relationships in KEGG. expand_KEGG_edges

Usage

keggerize_edges(entry_accession, KGML, KEGG_mappings, edges)

Arguments

entry_accession	The Accession # of the pathway entity to 'keggerize'
KGML	The KGML file of the current pathway
KEGG_mappings	KEGG mappings for the current pathway
edges	The expanded edges for the current pathway

Value

A modified expanded edges data frame with additional rows for new entries

Examples

## Not run: 
KGML <- get_KGML("hsa04150")
KEGG_mappings <- expand_KEGG_mappings(KGML)
edges <- expand_KEGG_edges(KGML, KEGG_mappings)
entry_accession <- "2475"
mtor_plus_mtor <- keggerize_edges(entry_accession = entry_accession, 
                                  KGML = KGML,KEGG_mappings = KEGG_mappings,
                                  edges = edges) 
## End(Not run)

uc-bd2k/KEGGlincs documentation built on May 3, 2019, 2:13 p.m.