setNodeShapeRule: setNodeShapeRule

In tmuetze/Bioconductor_RCy3_the_new_RCytoscape: Display and manipulate graphs in Cytoscape >= 3.3.0

Description

Specify how data attributes – the specified node attribute values – determine the node shape.

Usage

setNodeShapeRule (obj, node.attribute.name=, attribute.values, node.shapes,
                  default.shape, vizmap.style.name = 'default')

Arguments

obj	a CytoscapeWindowClass object.
node.attribute.name	the node attribute whose values will determine the shape of each node when this rule is applied.
attribute.values	A list of scalar, discrete values. For instance, molecule types: 'transporter', 'receptor', 'kinase'
node.shapes	A list of nodes selected from among those supported.
default.shape	A single String, the shape used if no explicit mapping is provided.
vizmap.style.name	visual style name, defaults to the style 'default'.

Value

None.

Author(s)

Tanja Muetze, Georgi Kolishovski, Paul Shannon

See Also

setNodeColorRule setNodeLabelRule

Examples

  ## Not run: 
  # first, delete existing windows to save memory:
  deleteAllWindows(CytoscapeConnection())

  cw <- CytoscapeWindow ('setNodeShapeRule.test', graph=makeSimpleGraph())
  displayGraph (cw)
  layoutNetwork (cw, 'force-directed')
  shapes <- c("TRIANGLE", "ROUND_RECTANGLE", "ELLIPSE")
  molecule.types <- c("kinase", "transcription factor", "glycoprotein")
  setNodeShapeRule (cw, node.attribute.name='type', molecule.types, shapes)

## End(Not run)

tmuetze/Bioconductor_RCy3_the_new_RCytoscape documentation built on May 31, 2019, 4:39 p.m.