Package ubic.basecode.math

Class MatrixNormalizer<R,C>

java.lang.Object

ubic.basecode.math.MatrixNormalizer<R,C>

public class MatrixNormalizer<R,C>
extends Object

Author:

paul

Constructor Summary

Constructors

Constructor	Description
MatrixNormalizer()

Method Summary

Modifier and Type	Method	Description
DoubleMatrix<R,C>	quantileNormalize(DoubleMatrix<R,C> matrix)	Rows with all missing will not be returned.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

MatrixNormalizer

public MatrixNormalizer()

Method Details

quantileNormalize

public DoubleMatrix<R,C> quantileNormalize(DoubleMatrix<R,C> matrix)

Rows with all missing will not be returned. Otherwise, missing values are imputed, used for estimating quantiles, and then replaced with missing values at the end.

Note that the Bioconductor implementation deals with missing values differently, and in a much more complex way. Therefore this gives different answers in the missing value case from Bioconductor (normalize.quantiles).

Parameters:

matrix -

Returns: