standardize {bapred}R Documentation

Batch effect adjustment by standardization

Description

Performs batch effect adjustment by standardizing the variables within batches to have zero mean and variance one.

Usage

standardize(x, batch)

Arguments

x

matrix. The covariate matrix. Observations in rows, variables in columns.

batch

factor. Batch variable. Currently has to have levels: '1', '2', '3' and so on.

Value

standardize returns an object of class standardize. An object of class "standardize" is a list containing the following components:

xadj

matrix of adjusted (training) data

nbatches

number of batches

batch

batch variable

Author(s)

Roman Hornung

Examples

data(autism)

params <- standardize(x=X, batch=batch)

[Package bapred version 1.0 Index]