Given a tbl_kgx graph, send it to Cytoscape for visualization. Node labels
are mapped to node name (if available, otherwise they default to node id),
node color is mapped to pcategory, edge color is mapped to predicate,
node hover-over text is set to description (if available, otherwise node id),
and edge hover-over text is set to predicate. Nodes are layed out
using the Kamada-Kawai method. These properties and more may be customized in
the Cytoscape application. This function requires that Cytoscape is installed
and running independently of the R session.
# S3 method for class 'tbl_kgx'
cytoscape(g, ...)A tbl_kgx() graph to visualize.
Other parameters (unused).
NULL, invisibly
if (FALSE) {
engine <- file_engine(system.file("extdata", "eds_marfan_kg.tar.gz", package = "monarchr"))
g <- engine |>
fetch_nodes(query_ids = "MONDO:0020066") |>
expand(predicates = "biolink:subclass_of", direction = "in", transitive = TRUE) |>
expand(categories = c("biolink:PhenotypicFeature", "biolink:Gene"))
# Cytoscape must be installed and running
cytoscape(g)
}