coverage: Coverage for single cells

In scmeth: Functions to conduct quality control analysis in methylation data

Description

Provides Coverage for each cell in a library pool

Usage

coverage(bs, subSample = 1e+06, offset = 50000)

Arguments

bs	bsseq object
subSample	number of CpGs to subsample. Default value is 1000000.
offset	how many CpGs to offset when subsampling Default value is set to be 50000, i.e. first 50000 CpGs will be ignored in subsampling.

Value

vector of coverage for the cells in bs object

Examples

directory <- system.file("extdata/bismark_data", package='scmeth')
bs <- HDF5Array::loadHDF5SummarizedExperiment(directory)
coverage(bs)

scmeth documentation built on Nov. 8, 2020, 6:21 p.m.