plotSpikeSpotError: plot spot error of spikes.

In CALIB: Calibration model for estimating absolute expression levels from microarray data

Description

Plot spot error of spikes. Three types of plots are avaible: histogram, boxplot and density.

Usage

plotSpikeSpotError(parameter, array = 1, plottype = "hist", width = 1, 
                   plotnames = NULL, main = NULL, ...)

Arguments

parameter	a ParameterList object.
array	integer giving the array to be plotted.
plottype	string giving the type of plot.
width	needed for density plot. This exists for compatibility with S; if given, and bw is not, will set bw to width if this is a character string, or to a kernel-dependent multiple of width if this is numeric. Default is 1.
plotnames	needed for boxplot. group labels which will be printed under each boxplot.
main	an overall title for the plot.
...	other parameters can be used according to the plottype user specified.

Details

The function plots spot error of one array on different types of plots. Three types, which are histogram, boxplot and density function, are available now. The argument plottype is used for giving the plot type. It should be one of the following three types: "hist", "boxplot" and "dens". The argument array gives the array index to be plotted.

The function accepts estimated spot error from the argument parameter.

Value

A plot is created on the current graphics device.

Author(s)

Hui Zhao

See Also

hist, boxplot and plot in the graphics package.

density in the stats package.

Examples

# load data: parameter
data(parameter)

# specify the array to be plotted.
array <- 1

# plot histogram
plotSpikeSpotError(parameter,array=array,plottype="hist")
# plot boxplot
plotSpikeSpotError(parameter,array=array,plottype="boxplot",plotnames=NULL)
# plot density function
plotSpikeSpotError(parameter,array=array,plottype="dens",width=1)

CALIB documentation built on Oct. 31, 2019, 3:45 a.m.