Retrieve Neighboring Nodes in a Knowledge Graph

Returns every node within degree_expansion hops of a node in the tKOI knowledge graph, including the node itself.

Usage

get_neighboring_nodes(
  gene_node_id,
  degree_expansion,
  subnetwork = tkoi::tkoi_net
)

Arguments

gene_node_id

A node ID (a vertex name of subnetwork), for example a gene's id in genes.

degree_expansion

Number of hops to expand. 1 returns the node and its direct neighbors; 2 also returns their neighbors.

subnetwork

An igraph object to search. Default tkoi::tkoi_net.

Value

A character vector of node IDs.

Details

The search uses igraph::ego() and ignores edge direction.

See also

ego, plot_network

Examples

if (FALSE) { # \dontrun{
gene_id = tkoi::genes$id[tkoi::genes$name == "TP53"]

# The gene and its direct neighbors
get_neighboring_nodes(gene_id, degree_expansion = 1)

# Everything within two hops
get_neighboring_nodes(gene_id, degree_expansion = 2)
} # }