R: set.covariates.sva

set.covariates.sva {RnBeads}

R Documentation

set.covariates.sva

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")

[Package RnBeads version 1.10.8 Index]