methLevels-method: methLevels method

In shokoohi/DMCFB: Differentially Methylated Cytosines via a Bayesian Functional Approach

methLevels method

Description

Returns methLevels stored in BSDMC-class

Assigns methLevels to BSDMC-class

Usage

methLevels(object)

methLevels(object) <- value

## S4 method for signature 'BSDMC'
methLevels(object)

## S4 replacement method for signature 'BSDMC,matrix'
methLevels(object) <- value

Arguments

object	A BSDMC-class object
value	An integer matrix

Value

A matrix

A BSDMC-class object

Author(s)

Farhad Shokoohi <[e-mail]>

Examples

nr <- 150
nc <- 8
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
)
methLevels(OBJ1)
methLevels(OBJ1) <- methl

shokoohi/DMCFB documentation built on April 21, 2022, 5:53 a.m.