readBismark-method {DMCFB} | R Documentation

## readBismark method

### Description

reads BS-Seq data

### Usage

    readBismark(files, colData, mc.cores)

    ## S4 method for signature 'character,DataFrame,numeric'
    readBismark(files, colData, mc.cores)

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

    ## S4 method for signature 'character,character,numeric'
    readBismark(files, colData, mc.cores)

### Arguments

`files` | A character list
`colData` | Object of class `'DataFrame'` containing information on variable values of the samples
`mc.cores` | An integer greater than 0

### Value

A `BSDMC-class` object

### Author(s)

Farhad Shokoohi <shokoohi@icloud.com>

### Examples

    fn <- list.files(system.file("extdata", package = "DMCFB"))
    fn.f <- list.files(system.file("extdata", package = "DMCFB"),
      full.names = TRUE
    )
    OBJ <- readBismark(fn.f, fn, mc.cores=1)
    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 1.6.0 Index]