mean_centering: mean_centering

In ber: Batch Effects Removal

Description

Batch effects are removed using the means of the batches.

Usage

mean_centering(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,…,n) representing the batch from which observation i belongs to.

Value

A matrix of adjusted data with n rows and g columns.

Author(s)

Marco Giordan

See Also

ber, ber_bg, combat_np, combat_p, standardization

Examples

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

Example output

Loading required package: MASS

ber documentation built on May 2, 2019, 2:21 p.m.