plotMvsA: Plot log-ratios vs log-intensities

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 vs log-intensities.

Usage

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

Arguments

X	Nx2 matrix with two channels and N observations.
Alab,Mlab	Labels on the x and y axes.
Alim,Mlim	Plot range on the A and M axes.
aspectRatio	Aspect ratio between Mlim and Alim.
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

Red channel is assumed to be in column one and green in column two. Log-ratio are calculated taking channel one over channel two.

Value

Returns nothing.

Author(s)

Henrik Bengtsson

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