totalReads-method: totalReads method

In DMCFB: Differentially Methylated Cytosines via a Bayesian Functional Approach

Description

Returns totalReads stored in BSDMC-class

Assigns totalReads to BSDMC-class

Usage

totalReads(object)

totalReads(object) <- value

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

## S4 replacement method for signature 'BSDMC,matrix'
totalReads(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
)
totalReads(OBJ1)
totalReads(OBJ1) <- metht

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