sizeFactors: Accessor functions for the 'sizeFactors' information in a...

In aghozlane/DESeq2shaman: Differential gene expression analysis based on the negative binomial distribution

Description

The sizeFactors vector assigns to each column of the count matrix a value, the size factor, such that count values in the columns can be brought to a common scale by dividing by the corresponding size factor. See DESeq for a description of the use of size factors. If gene-specific normalization is desired for each sample, use normalizationFactors.

Usage

## S4 method for signature 'DESeqDataSet'
sizeFactors(object)

## S4 replacement method for signature 'DESeqDataSet,numeric'
sizeFactors(object)<-value

## S4 method for signature 'DESeqDataSet'
sizeFactors(object)

## S4 replacement method for signature 'DESeqDataSet,numeric'
sizeFactors(object) <- value

Arguments

object	a DESeqDataSet object.
value	a numeric vector, one size factor for each column in the count data.

Author(s)

Simon Anders

See Also

estimateSizeFactors

Examples

dds <- makeExampleDESeqDataSet()
dds <- estimateSizeFactors( dds )
sizeFactors(dds)

aghozlane/DESeq2shaman documentation built on Nov. 1, 2019, 9:01 p.m.