normalizeRPM {FourCSeq} | R Documentation

## Normalize count data to rpm

### Description

`normalizeRPM` Normalizes the counts of each experiment to RPM.

### Usage

    normalizeRPM(
      object,
      assay = "counts",
      normalized = "rpm",
      removeHighestValues = 0
    )

### Arguments

`object` | A `FourC` object.
`assay` | Character vector selecting the assay of the `FourC` object that should be normalized.
`normalized` | Character vector specifying the assay name of the normalized data.
`removeHighestValues` | Defines the number of highest count values that should be removed before the library sizes are calculated in the denominator. `normalized` containing the normalized data.

### Author(s)

Felix A. Klein, felix.klein@embl.de

### See Also

`FourC`, `combineFragEnds`

### Examples

    data(fc, package="FourCSeq")

    fc <- combineFragEnds(fc)
    fc

    fc <- normalizeRPM(fc)
    fc

[Package FourCSeq version 1.22.1 Index]