plotMvsAPairs: Plot log-ratios/log-intensities for all unique pairs of data...

In HenrikBengtsson/aroma.light-BioC_release: Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types

Description

Plot log-ratios/log-intensities for all unique pairs of data vectors.

Usage

## S3 method for class 'matrix'
plotMvsAPairs(X, Alab="A", Mlab="M", Alim=c(0, 16), Mlim=c(-1, 1) * diff(Alim), pch=".",
  ..., add=FALSE)

Arguments

X	NxK matrix where N is the number of observations and K is the number of channels.
Alab,Mlab	Labels on the x and y axes.
Alim,Mlim	Plot range on the A and M axes.
pch	Plot symbol used.
...	Additional arguments accepted by points.
add	If TRUE, data points are plotted in the current plot, otherwise a new plot is created.

Details

Log-ratios and log-intensities are calculated for each neighboring pair of channels (columns) and plotted. Thus, in total there will be K-1 data set plotted.

The colors used for the plotted pairs are 1, 2, and so on. To change the colors, use a different color palette.

Value

Returns nothing.

Author(s)

Henrik Bengtsson

HenrikBengtsson/aroma.light-BioC_release documentation built on May 7, 2019, 1:55 a.m.