RnBeads (version 1.4.0)

covg,RnBSet-method: covg-methods

Description

Extract coverage information from an object of RnBSet class.

Usage

"covg"(object, type = "sites", row.names = FALSE, i = NULL, j = NULL)

Arguments

object

Dataset of interest.

type

character singleton. If sites DNA methylation information per each available site is returned. Otherwise should be one of region types for for which the summarized coverage information is available

row.names

Flag indicating of row names are to be generated in the result.

i

indices of sites/regions to be retrieved. By default (NULL), all will be retrieved.

j

indices of samples to be retrieved. By default (NULL), all will be retrieved.

Value

coverage information available for the dataset in the form of a matrix.

Examples

library(RnBeads.hg19)
data(small.example.object)
## per-site beta-value matrix
cvg<-covg(rnb.set.example, row.names=TRUE)
head(cvg)