repMask: Provides Coverage metrics in the repeat masker region

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

Description

Provides Coverage metrics in the repeat masker region

Usage

repMask(bs, organism, genome)

Arguments

bs	bsseq object
organism	scientific name of the organism of interest, e.g. Mmusculus or Hsapiens
genome	reference alignment, i.e. mm10 or hg38

Value

Data frame with sample name and coverage in repeat masker regions

Examples

library(BSgenome.Mmusculus.UCSC.mm10)
library(AnnotationHub)
load(system.file("extdata", 'bsObject.rda', package='scmeth'))
repMask(bs, Mmusculus, 'mm10')

aryeelab/scmeth documentation built on June 15, 2019, 8:02 p.m.