edge_tbl_to_graph {eHDPrep}

Convert edge table to tidygraph graph

Description

A edge table, as a data frame, is converted to a directed tidygraph tidygraph. Column 1 of the edge table is interpreted as a "from" column, Column 2 is interpreted as a "to" column, and any further columns are interpreted as attributes of the entity/node recorded in column 1. Incomplete cases are removed from the edge table (rows) to avoid redundancy

Usage

edge_tbl_to_graph(edge_tbl)

Arguments

edge_tbl

data frame containing 'from' nodes in column 1 and 'to' nodes in column 2 so that all nodes go 'towards' the root node

Value

tidygraph representation of the edge table

Examples

# basic edge table
edge_tbl <- tibble::tribble(~from, ~to,
"Nstage", "TNM",
"Tstage", "TNM",
"Tumoursize", "property_of_tumour",
"Tstage", "property_of_tumour",
"property_of_tumour", "property_of_cancer",
"TNM", "property_of_cancer",
"property_of_cancer", "disease",
"disease", "root",
"root", NA)

graph <- edge_tbl_to_graph(edge_tbl)

graph

plot(graph)


# edge table with node attributes
## note that root node is included in final row to include its label
edge_tbl <- tibble::tribble(~from, ~to, ~label,
"Nstage", "TNM", "N stage",
"Tstage", "TNM", "T stage",
"Tumoursize", "property_of_tumour", "Tumour size",
"Tstage", "property_of_tumour", "T stage",
"property_of_tumour", "property_of_cancer", "Property of tumour",
"TNM", "property_of_cancer", "TNM",
"property_of_cancer", "disease", "Property of cancer",
"disease", "root", "Disease",
"root", NA, "Ontology Root")
graph <- edge_tbl_to_graph(edge_tbl)

graph

plot(graph)