INCA.SpikePlot {INCATome}

Linearity Plot for Spike In Probes

Description

Plots a linearity plot for Spike In probes for microarray data.

Usage

INCA.SpikePlot(x, SpikeFile, wcol, base = 2)

Arguments

x

an RGList object

SpikeFile

a data.frame specifying the Spike In probe names in a column called "Probe" and the expected relative amounts for each dye, respectively in a "Cy5" and "Cy3" column. For example, a given probe might be expected in a 3:1 ratio thus column "Cy5" would specify 3 and column "Cy3" would specify 1.

wcol

an integer specifying the number of the column where Gene Names can be found in the gene annotation table.

base

an integer specifying the log base. Default is 2.

Value

Generates jpeg files of SpikeIn Linearity plots for each arrays.

Examples

#Load the INCATome Dataset
data(INCATomeData)
attach(INCATomeData)
INCA.SpikePlot(RGdata,sdata,8)