reads-methods {ChIPQC} | R Documentation

## Retrieve numbers of reads

### Description

Retrieve the numbers of reads.

### Methods

`signature(object = "ChIPQCexperiment", bFiltered)`

  Retrieve a `vector` of the numbers of reads for each sample in an experiment. If `bFiltered=TRUE` (or is missing), this will be the number of reads that pass the mapping quality filter for each sample. if `bFiltered=FALSE`, it will be the total number of reads for each sample.

`signature(object = "list", bFiltered)`

  Retrieve a `vector` of the numbers of reads for each sample in a list of ChIPQCsample objects. If `bFiltered=TRUE` (or is missing), this will be the number of reads that pass the mapping quality filter for each sample. if `bFiltered=FALSE`, it will be the total number of reads for each sample.

`signature(object = "ChIPQCsample", bFiltered)`

  Retrieve the number of reads for a sample. If `bFiltered=TRUE` (or is missing), this will be the number of reads that pass the mapping quality filter. if `bFiltered=FALSE`, it will be the total number of reads for the sample.

### Author(s)

Thomas Carroll and Rory Stark

### See Also

ChIPQC-package, ChIPQCexperiment, ChIPQCsample

### Examples

    data(example_QCexperiment)
    reads(exampleExp)
    reads(QCsample(exampleExp,1))

[Package ChIPQC version 1.18.2 Index]