normMethod: Accessors for the 'normMethod' slot of a ABSDataSet object.

In ABSSeq: ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences

Description

Accessor functions for the 'normMethod' information in a ABSDataSet object.

Usage

## S4 method for signature 'ABSDataSet'
normMethod(object)

## S4 replacement method for signature 'ABSDataSet,character'
normMethod(object)<-value

Arguments

object	an ABSDataSet object.
value	a character object, should be one of 'user', 'qtoatl', 'total', 'quartile' and 'geometric'. See normalFactors

Details

The 'normMethod' is the method for calculating the size factors. Currently, Four methods: 'user', 'qtoatl', 'total', 'quartile' and 'DESeq' are available.

Examples

data(simuN5)
obj <- ABSDataSet(counts=simuN5$counts, groups=factor(simuN5$groups))
normMethod(obj)
normMethod(obj) <- "geometric"
normMethod(obj)

ABSSeq documentation built on Nov. 8, 2020, 5:07 p.m.