WGBSeq: Wrapper for WGBS settings for dmrseq

View source: R/WGBSeq.R

WGBSeqR Documentation

Wrapper for WGBS settings for dmrseq

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())


trichelab/biscuiteer documentation built on March 4, 2024, 12:22 a.m.