FragmentLengthCrossCoverage-methods: Retrieve the cross coverage values when extending reads to...

In ChIPQC: Quality metrics for ChIPseq data

Description

Retrieve the cross coverage values when extending reads to the optimal fragment length.

Methods

signature(object = "ChIPQCexperiment")

Retrieve a vector of cross-coverage values for all samples in a ChIP-seq experiment, when all reads are shifted by the optimal fragment length (the maximum cross-coverage value).

signature(object = "list")

Retrieve a vector of cross-coverage values for all samples in a list of ChIPQCsample objects, when all reads are shifted by the optimal fragment length (the maximum cross-coverage value).

signature(object = "ChIPQCsample")

Retrieve the cross-coverage value for a sample, when all reads are shifted by the optimal fragment length (the maximum cross-coverage value).

Author(s)

Thomas Carroll and Rory Stark

See Also

ChIPQC-package, ChIPQCexperiment, ChIPQCsample

Examples

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

ChIPQC documentation built on Nov. 8, 2020, 8:06 p.m.