plotDMCFB-method {DMCFB} | R Documentation

## plotDMCFB method

### Description

Plotting the results of DMC identifation stored in a `BSDMC-class` object

### Usage

    plotDMCFB(object, region, nSplit, parList)

    ## S4 method for signature 'BSDMC'
    plotDMCFB(object, region, nSplit, parList)

### Arguments

`object` | A `BSDMC-class` object
`region` | An integer vector of length two specifying which subset of the object to be plotted
`nSplit` | A integer value specifying the number of subsets must be done for plotting the results of DMC identification
`parList` | A list specifying plots parameters, see `par`

### Value

Plot

### Author(s)

Farhad Shokoohi <shokoohi@icloud.com>

### Examples

    set.seed(1980)
    nr <- 1000
    nc <- 4
    metht <- matrix(as.integer(runif(nr * nc, 0, 100)), nr)
    methc <- matrix(rbinom(n = nr * nc, c(metht), prob = runif(nr * nc)), nr, nc)
    methl <- methc / metht
    r1 <- GRanges(rep("chr1", nr), IRanges(1:nr, width = 1), strand = "*")
    names(r1) <- 1:nr
    cd1 <- DataFrame(
      Group = rep(c("G1", "G2"), each = nc / 2),
      row.names = LETTERS[1:nc]
    )
    OBJ1 <- cBSDMC(
      rowRanges = r1, methReads = methc, totalReads = metht,
      methLevels = methl, colData = cd1
    )
    OBJ2 <- findDMCFB(OBJ1,
      bwa = 10, bwb = 10, nBurn = 50, nMC = 50, nThin = 1,
      alpha = 0.05, nCores = 2, pSize = 500, sfiles = FALSE
    )
    plotDMCFB(OBJ2)

[Package DMCFB version 1.6.0 Index]