counts: Accessors for the 'counts' slot of a CountDataSet object.

In DESeq: Differential gene expression analysis based on the negative binomial distribution

Description

The counts slot holds the count data as a matrix of non-negative integer count values, one row for each observational unit (gene or the like), and one column for each sample.

Usage

## S4 method for signature 'CountDataSet'
counts(object, normalized=FALSE)
## S4 replacement method for signature 'CountDataSet,matrix'
counts(object) <- value

Arguments

object	a CountDataSet object.
normalized	logical indicating whether or not to divide the counts by the size factors before returning.
value	integer matrix.

Author(s)

Simon Anders, [e-mail]

Examples

   cds <- makeExampleCountDataSet()
   head( counts( cds ) )

DESeq documentation built on April 28, 2020, 6:37 p.m.