plotRegions: Plots given regions by segments

In cn.farms: cn.FARMS - factor analysis for copy number estimation

Description

A pdf in the working directory is produced.

Usage

plotRegions(object, segments, addInd = NULL, ylim, variable,
  colorVersion = 0, plotLegend = TRUE, pdfname)

Arguments

object	An instance of ExpressionSet
segments	An instance of ExpressionSet with the segments to plot
addInd	States how many indices should be plotted besides the region
ylim	The limits for the y axis.
variable	States which variable of the assayData should be plotted.
colorVersion	States different color versions.
plotLegend	If a legend should be plotted or not.
pdfname	The name of the pdf file.

Value

A graph. Normally a pdf in the current work directory.

Author(s)

Djork-Arne Clevert [e-mail] and Andreas Mitterecker [e-mail]

Examples

load(system.file("exampleData/slData.RData", package = "cn.farms"))
load(system.file("exampleData/testSegments.RData", package = "cn.farms"))
plotRegions(slData, testSegments, addInd = 10, ylim = c(-2, 2),
        variable = "L_z", colorVersion = 1, plotLegend = TRUE,
        pdfname = "slData.pdf")

cn.farms documentation built on Nov. 8, 2020, 7:59 p.m.