Create an igraph network from a Cytoscape network

Source: R/Networks.R

Takes a Cytoscape network and generates data frames for vertices and edges to send to the graph_from_data_frame function. Returns the network.suid and applies the perferred layout set in Cytoscape preferences.

createIgraphFromNetwork(network = NULL, base.url = .defaultBaseUrl)

Arguments

network

(optional) Name or SUID of the network. Default is the "current" network active in Cytoscape.
base.url

(optional) Ignore unless you need to specify a custom domain, port or version to connect to the CyREST API. Default is http://localhost:1234 and the latest version of the CyREST API supported by this version of RCy3.

Value

(igraph) an igraph network

Details

Nodes and edges from the Cytoscape network will be translated into vertices and edges in igraph. Associated table columns will also be passed to igraph as vertiex and edge attributes. Note: all networks are implicitly modeled as directed in Cytoscape. Round-trip conversion of an undirected network in igraph via createNetworkFromIgraph to Cytoscape and back to igraph will result in a directed network.

See also

createNetworkFromDataFrames, createNetworkFromIgraph

Examples

# \donttest{
ig <- createIgraphFromNetwork()
ig <- createIgraphFromNetwork('myNetwork')
# }