plotEvalIc: Creates a plot with known regions and a numeric vector

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

Description

Creates a plot with known regions and a numeric vector

Usage

plotEvalIc(object, segments, chrom, variable, ylim, ylab = "CN indicator",
  stripCol = "lightgray", regionCol = rgb(130, 0, 139, maxColorValue = 255),
  pointSize = 0.75, pointType = 4, bandwidth = c(0.01, 1000),
  nbin = 100)

Arguments

object	an instance of ExpressionSet
segments	A data.frame with known regions.
chrom	the chromosome.
variable	The numeric vector which should be plotted.
ylim	the limits of the y axis.
ylab	the ylab from function par.
stripCol	color of points.
regionCol	color of regions.
pointSize	size of the points.
pointType	type of the points.
bandwidth	for the color of the plot.
nbin	number of bins for the coloring.

Value

Some data

Author(s)

Andreas Mitterecker

Examples

load(system.file("exampleData/slData.RData", package = "cn.farms"))
load(system.file("exampleData/testSegments.RData", package = "cn.farms"))
plotEvalIc(slData, fData(testSegments),
     variable = assayData(slData)$L_z[, 1], 23)

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