Package net.sf.basedb.util.ma

Class Log2MACalculator

java.lang.Object

net.sf.basedb.util.ma.MACalculator

net.sf.basedb.util.ma.Log2MACalculator

public class Log2MACalculator
extends MACalculator

MA calculator for log2-transformed spot intensity values.

Since:

3.2.4

Author:

nicklas

Field Summary

Fields

Modifier and Type	Field	Description
(package private) static final double	INV_LOG2_10x2

Fields inherited from class net.sf.basedb.util.ma.MACalculator

INV_LN10x2, INV_LN2

Constructor Summary

Constructors

Constructor	Description
Log2MACalculator()

Method Summary

Modifier and Type	Method	Description
double[]	correct(double ch1, double ch2, double factor)	ch1 = old - factor ch2 = old + factor
double[]	MA(double ch1, double ch2)	M = ch1 - ch2 A = (ch1 + ch2) / (2 * log2(10))

Methods inherited from class java.lang.Object

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

Field Details

INV_LOG2_10x2

static final double INV_LOG2_10x2

Constructor Details

Log2MACalculator

public Log2MACalculator()

Method Details

MA

public double[] MA(double ch1,
 double ch2)

M = ch1 - ch2 A = (ch1 + ch2) / (2 * log2(10))

Overrides:

MA in class MACalculator

Returns:

An array with [0] = M, [1] = A

correct

public double[] correct(double ch1,
 double ch2,
 double factor)

ch1 = old - factor ch2 = old + factor

Overrides:

correct in class MACalculator

Returns:

An array with [0] = newCh1, [1] = newCh2