WGBSeq: Wrapper for WGBS settings for dmrseq

In biscuiteer: Convenience Functions for Biscuit

Description

Wrapper for WGBS settings for dmrseq

Usage

WGBSeq(bsseq, testCovariate, bpSpan = 1000, ...)

Arguments

bsseq	A bsseq object
testCovariate	The pData column to test on
bpSpan	Span of smoother AND 2x max gap in DMR CpGs (DEFAULT: 1000)
...	Other arguments to pass along to dmrseq

Value

          A GRanges object (same as from dmrseq)

Examples

  data(BS.chr21, package="dmrseq")
  dat <- BS.chr21

  wgbs <- WGBSeq(dat[1:500, ], "CellType", cutoff = 0.05,
                 BPPARAM=BiocParallel::SerialParam())

biscuiteer documentation built on Nov. 8, 2020, 8:28 p.m.