colorVertexByAttr: Computes colors for vertices according to their attributes.

In aiminy/NetPathMiner: NetPathMiner for Biological Network Construction, Path Mining and Visualization

Description

This function returns a list of colors for vertices, assigned similar colors if they share a common attribute (ex: in the same pathway, etc).

Usage

colorVertexByAttr(graph, attr.name, col.palette = palette())

Arguments

graph	An annotated igraph object.
attr.name	The attribute name (ex: "pathway") by which vertices will be colored. Complex attributes, where a vertex belongs to more than one group, are supported.
col.palette	A color palette, or a palette generating function (ex: col.palette=rainbow ).

Value

A list of colors (in HEX format) for vertices.

Author(s)

Ahmed Mohamed

See Also

Other Plotting methods: layoutVertexByAttr, plotAllNetworks, plotClassifierROC, plotClusterMatrix, plotCytoscapeGML, plotNetwork, plotPathClassifier, plotPaths

Examples

  data("ex_kgml_sig")
  v.colors <- colorVertexByAttr(ex_kgml_sig, "pathway") 
  plotNetwork(ex_kgml_sig, vertex.color=v.colors)

aiminy/NetPathMiner documentation built on May 12, 2019, 3:38 a.m.