RnBeads (version 1.4.0)

rnb.execute.cross.reactive.removal: rnb.execute.cross.reactive.removal

Description

Removes all probes defined as cross-reactive from the given dataset.

Usage

rnb.execute.cross.reactive.removal(rnb.set)

Arguments

rnb.set

Methylation dataset as an object of type inheriting RnBeadSet.

Value

list of four elements:

"dataset.before"

Copy of rnb.set.

"dataset"

The (possibly) modified dataset object after removing probes that have a high likelihood of cross-hybridization.

"filtered"

integer vector storing the indices (in beta matrix of the unfiltered dataset) of all removed probes.

Examples

library(RnBeads.hg19)
data(small.example.object)
rnb.set.filtered <- rnb.execute.cross.reactive.removal(rnb.set.example)$dataset
identical(meth(rnb.set.example), meth(rnb.set.filtered)) # FALSE