cytoscapePlot: Plot a pathway graph in Cytoscape

In sales-lab/graphite: GRAPH Interaction from pathway Topological Environment

Plot a pathway graph in Cytoscape

Description

Renders the topology of a pathway as a Cytoscape graph.

Usage

cytoscapePlot(pathway, ..., cy.ver = 3)

Arguments

pathway	a Pathway object.
...	optional arguments forwarded to pathwayGraph.
cy.ver	select a Cytoscape version. Only version 3 is supported in this release.

Details

Requires the RCy3 package.

Value

An invisible list with two items:

graph	the graphNEL object sent to Cytoscape.
suid	the RCy3 network SUID.

See Also

Pathway

pathwayGraph

Examples

## Not run: 
  r <- pathways()
  cytoscapePlot(convertIdentifiers(reactome$`Unwinding of DNA`, "symbol"))

## End(Not run)

sales-lab/graphite documentation built on Nov. 1, 2024, 4:49 p.m.