ber (version 4.0)

standardization: standardization

Description

Batch effects are removed using the means and the standard deviations of the batches.

Usage

standardization(Y, b)

Arguments

Y

A matrix with $n$ rows and $g$ columns, where $n$ is the number of objects and $g$ is the number of variables. In the case of gene expression data, columns correspond to genes (probe sets) and rows to samples.

b

A vector of class factor with the element in position $i$ ($i=1,\ldots,n$) representing the batch from which observation $i$ belongs to.

Value

$n$ rows and $g$ columns.

See Also

ber, ber_bg, combat_np, combat_p, mean_centering

Examples

Y<-matrix(rnorm(6000),nrow=12)
batch<-rep(gl(2,3,labels=c("Batch1","Batch2")),2)
YEadj<-standardization(Y,batch)