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 1.24.0 Index]