addPathwayImagesWithSelection: Add network diagrams of affected pathways.

In biodev/packageDir: Tool for in silico functional analysis design and exploration of relation between genomic function and aberration.

Description

Outputs to cytoscape diagrams of affected pathways .

Usage

addPathwayImagesWithSelection(study, limitCol = "hyperg_p_w_FDR",
  limitVal = 0.05)

Arguments

study	A Study object.
limitCol	The column from the results that is used to limit the number of path diagrams displayed.
limitVal	The value in the limitCol used to limit the number of pathways. Net work diagrams will only be produced for pathways with values in limitCol which are smaller than limitVal.

Value

A Study object will be returned with file names of network diagrams added to the imageSlots slot of the appropriate results sets.

biodev/packageDir documentation built on Nov. 4, 2019, 7:19 a.m.