oligo (version 1.36.1)

image: Display a pseudo-image of a microarray chip

Description

Produces a pseudo-image (graphics::image) for each sample.

Usage

## S3 method for class 'FeatureSet':
image(x, which, transfo=log2, ...)
## S3 method for class 'PLMset':
image(x, which=0,
                   type=c("weights","resids", "pos.resids","neg.resids","sign.resids"),
                   use.log=TRUE, add.legend=FALSE, standardize=FALSE,
                   col=NULL, main, ...)

Arguments

x

FeatureSet object

which

integer indices of samples to be plotted (optional).

transfo

function to be applied to the data prior to plotting.

type

Type of statistics to be used.

use.log

Use log.

add.legend

Add legend.

standardize

Standardize residuals.

col

Colors to be used.

main

Main title.

...

parameters to be passed to image

Examples

if(require(oligoData) & require(pd.hg18.60mer.expr)){
  data(nimbleExpressionFS)
  par(mfrow=c(1, 2))
  image(nimbleExpressionFS, which=4)
##  fit <- fitPLM(nimbleExpressionFS)
##  image(fit, which=4)
  plot(1) ## while fixing fitPLM TODO
}