combineFragEnds: Combine the counts of both fragment ends.

In FourCSeq: Package analyse 4C sequencing data

Description

combineFragEnds combines the counts of both fragment ends. A multiplication factor can be used for fragments that only have counts for one valid fragment end.

Usage

combineFragEnds(object, multFactor = 1, filter = FALSE)

Arguments

object	A FourC object.
multFactor	Multiplication factor that can be used to multiply the counts of fragments which only have one valid end. Default is 1. filter is automatically set to TRUE if multFactor is different from 1.
filter	If filter is TRUE, only reads from valid fragment ends are summed up for each fragment. This means if only one fragment end is valid only counts from this end are considered. If filter is FALSE, counts from both fragment ends are summed up without any filtering.

Value

Returns an updated FourC object with a new assay counts containing the combined count data of both fragment ends for all viewpoints.

Author(s)

Felix A. Klein, [e-mail]

See Also

FourC, countFragmentOverlaps

Examples

                       
data(fc, package="FourCSeq")

fc <- combineFragEnds(fc)
fc

FourCSeq documentation built on Nov. 8, 2020, 7:08 p.m.