org.broadinstitute.hellbender.utils

Class MatrixSummaryUtils

java.lang.Object

org.broadinstitute.hellbender.utils.MatrixSummaryUtils

public class MatrixSummaryUtils
extends java.lang.Object

Static class for implementing some matrix summary stats that are not in Apache, Spark, etc

Method Summary

Modifier and Type	Method and Description
static double[]	getColumnMedians(org.apache.commons.math3.linear.RealMatrix m) Return an array containing the median for each column in the given matrix.
static double[]	getRowMedians(org.apache.commons.math3.linear.RealMatrix m) Return an array containing the median for each row in the given matrix.
static double[]	getRowVariances(org.apache.commons.math3.linear.RealMatrix m) Return an array containing the variance for each row in the given matrix.

Methods inherited from class java.lang.Object

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

Method Detail

getColumnMedians

public static double[] getColumnMedians(org.apache.commons.math3.linear.RealMatrix m)

Return an array containing the median for each column in the given matrix.

Parameters:

m - Not null. Size MxN, where neither dimension is zero. If any entry is NaN, it is disregarded in the calculation.

Returns:

array of size N. Never null

getRowMedians

public static double[] getRowMedians(org.apache.commons.math3.linear.RealMatrix m)

Return an array containing the median for each row in the given matrix.

Parameters:

m - Not null. Size MxN. If any entry is NaN, it is disregarded in the calculation.

Returns:

array of size M. Never null

getRowVariances

public static double[] getRowVariances(org.apache.commons.math3.linear.RealMatrix m)

Return an array containing the variance for each row in the given matrix.

Parameters:

m - Not null. Size MxN. If any entry is NaN, the corresponding rows will have a variance of NaN.

Returns:

array of size M. Never null IF there is only one column (or only one entry