RCy3 (version 1.2.0)

setEdgeSourceArrowColorRule: Specify Rule for the Source Arrow Color

Description

Specify how edge attributes -- that is, data values of the specified edge attribute -- control the color of the source arrow, found at the end of an edge, where it connects to the source node.

Usage

setEdgeSourceArrowColorRule(obj, edge.attribute.name, control.points, colors, mode="interpolate", default.color='#000000')

Arguments

obj

a CytoscapeWindowClass object.

edge.attribute.name

the edge attribute whose values will determine the color of the source arrow for each edge when this ColorRule is applied.

control.points

A list of scalar, discrete values. For instance, interaction types: 'phosphorylates', 'ubiquinates', 'represses', 'activates'

colors

A color for each of the attribute.values

mode

either 'interpolate' or 'lookup'.

default.color

The color to use when an explicit mapping is not provided.

Value

None.

See Also

setEdgeTargetArrowColorRule

Examples

  # first, delete existing windows to save memory:
  deleteAllWindows(CytoscapeConnection())

  # send and display graph
  cw <- CytoscapeWindow ('setEdgeSourceArrowColorRule.test', graph=makeSimpleGraph())
  displayGraph (cw)
  redraw (cw)
  layoutNetwork (cw, 'force-directed')
  
  colors <- c ("#AA00AA", "#AAAA00", "#AA0000")
  edgeType.values <- c ('phosphorylates', 'synthetic lethal', 'undefined')
  
  # add edge arrows
  arrows <- c ('Arrow', 'Diamond', 'Circle')
  edgeType.values <- c ('phosphorylates', 'synthetic lethal', 'undefined')
  setEdgeSourceArrowRule (cw, 'edgeType', edgeType.values, arrows)
  
  # set rule
  setEdgeSourceArrowColorRule (cw, 'edgeType', edgeType.values, colors, mode='lookup')
  
  # if not specified, the mode is interpolate
  colors <- c ("#FFFFFF", "#00FF00", "#00AA00", "#FF0000", "#AA0000")
  control.points <- c( -12.0, 35.0, 0.0 )
  setEdgeSourceArrowColorRule (cw, 'score', control.points, colors)