repMask: Provides Coverage metrics in the repeat masker region

Description Usage Arguments Value Examples

View source: R/repMask.R

Description

Provides Coverage metrics in the repeat masker region

Usage

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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

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

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