readBismark-method: readBismark method

In DMCFB: Differentially Methylated Cytosines via a Bayesian Functional Approach

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 <[e-mail]>

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

DMCFB documentation built on Nov. 8, 2020, 8:03 p.m.