transform.ProbeSet: A function to transform a ProbeSet

In affypdnn: Probe Dependent Nearest Neighbours (PDNN) for the affy package

Description

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

Usage

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

Arguments

_data	object of ProbeSet-class.
fun	a function. The identity function by default.
...	optional arguments for fun.

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.

Value

An object of class ProbeSet.

Note

This function should make to the package affy for the version 1.4.x.

Author(s)

Laurent

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)

affypdnn documentation built on Oct. 31, 2019, 7:34 a.m.