readBismark-method {DMCFB}R Documentation

readBismark method

Description

reads BS-Seq data

Usage

readBismark(files, colData)

## S4 method for signature 'character,DataFrame'
readBismark(files, colData)

## S4 method for signature 'character,data.frame'
readBismark(files, colData)

## S4 method for signature 'character,character'
readBismark(files, colData)

Arguments

files

A character list

colData

Object of class 'DataFrame' containing information on variable values of the samples

Value

A BSDMC-class object

Author(s)

Farhad Shokoohi <shokoohi@icloud.com>

Examples

fn <- list.files(system.file("extdata", package = "DMCHMM"))
fn.f <- list.files(system.file("extdata", package = "DMCHMM"),
  full.names = TRUE
)
OBJ <- readBismark(fn.f, fn)
cdOBJ <- DataFrame(Cell = factor(c("BC", "TC", "Mono"),
  labels = c("BC", "TC", "Mono")
), row.names = c("BCU1568", "BCU173", "BCU551"))
colData(OBJ) <- cdOBJ
OBJ
[Package DMCFB version 1.0.0 Index]