counts: Accessors for the count matrix of a IsomirDataSeq object.

In lpantano/isomiRs: Analyze isomiRs and miRNAs from small RNA-seq

Accessors for the count matrix of a IsomirDataSeq object.

Description

The counts slot holds the count data as a matrix of non-negative integer count values, one row for each isomiR, and one column for each sample. The normalized matrix can be obtained by using the parameter norm=TRUE.

Usage

counts.IsomirDataSeq(object, norm = FALSE)

## S4 method for signature 'IsomirDataSeq'
counts(object, norm = FALSE)

## S4 replacement method for signature 'IsomirDataSeq,matrix'
counts(object) <- value

Arguments

object	A IsomirDataSeq object.
norm	Boolean, return log2-normalized counts.
value	An integer matrix.

Value

base::matrix with raw or normalized count data.

Author(s)

Lorena Pantano

Examples

data(mirData)
head(counts(mirData))

lpantano/isomiRs documentation built on Aug. 26, 2024, 3:34 a.m.