countMatrix: Accessors for the 'countMatrix' slot of an srnadiffExp object

In mzytnicki/srnadiff: Finding differentially expressed unannotated genomic regions from RNA-seq data

Accessors for the 'countMatrix' slot of an srnadiffExp object

Description

The countMatrix slot holds the count matrix from the DERs found.

Usage

## S4 method for signature 'srnadiffExp'
countMatrix(object)

Arguments

object

An srnadiffExp object.

Details

In the last step of an sRNA-diff approach, the potential DERs is assessed. Reads (including fractions of reads) that overlap each expressed region are counted to arrive at a count matrix with one row per region and one column per sample. This matrix to been used for quantify the statistic signification of the finded regions.

Value

A matrix with the number of reads for each regions, and each sample.

Examples

srnaExp <- srnadiffExample()
srnaExp <- srnadiff(srnaExp)
countMatrix(srnaExp)

mzytnicki/srnadiff documentation built on March 7, 2023, 2:18 a.m.