has.covariates.sva: has.covariates.sva

In RnBeads: RnBeads

Description

Returns whether Surrogate Variables have been computed and added to the rnb.set for a given target variable

Usage

has.covariates.sva(rnb.set, target)

Arguments

rnb.set	RnBSet object
target	target variable. Must be in pheno(rnb.set) and belong to target variables for which the SVs have already been computed and stored in the RnBSet.

Value

logical(1)

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")
has.covariates.sva(rnb.set.mod,"Treatment")

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