set.covariates.sva: set.covariates.sva

In RnBeads: RnBeads

Description

Adds the results of Surrogate Variable Analysis (SVA) to an RnBSet

Usage

set.covariates.sva(rnb.set, sva.obj)

Arguments

rnb.set	The RnBSet object to which the results should be added
sva.obj	An object of class SvaResult as returned by rnb.execute.sva.

Value

The modified RnBSet. Note that the association information will not be stored.

Author(s)

Fabian Mueller

Examples

library(RnBeads.hg19)
data(small.example.object)
logger.start(fname=NA)
sva.obj <- rnb.execute.sva(rnb.set.example,c("Sample_Group","Treatment"),numSVmethod="be")
sva.obj$sva.performed
sva.obj$num.components
rnb.set.mod <- set.covariates.sva(rnb.set.example, sva.obj)
has.covariates.sva(rnb.set.example,"Sample_Group")
has.covariates.sva(rnb.set.mod,"Sample_Group")

RnBeads documentation built on March 3, 2021, 2 a.m.