affy (version 1.50.0)

transform.ProbeSet: A function to transform a ProbeSet

Description

A function to transform the PMs and MMs in a ProbeSet.

Usage

## S3 method for class 'ProbeSet':
transform(`_data`, fun = I, \dots)

Arguments

_data

object of ProbeSet-class.

fun

a function. The identity function by default.

...

optional arguments for fun.

Value

• An object of class ProbeSet.

Details

The function fun is applied to the slots pm and mm. The function vsnh in the package vsn is a recommended argument for fun.

Examples

library(affydata)

data(Dilution)

ppset.name <- sample(featureNames(Dilution), 1)
ppset <- probeset(Dilution, ppset.name)[[1]]
ppset.log <- transform(ppset, fun=log)

par(mfrow=c(1,2))
plot(ppset)
plot(ppset.log)