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

In shengqh/ChIPQC: Quality metrics for ChIPseq data

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

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))

shengqh/ChIPQC documentation built on Feb. 27, 2023, 10:51 p.m.