picard.analysis

Class TheoreticalSensitivity

java.lang.Object

picard.analysis.TheoreticalSensitivity

public class TheoreticalSensitivity
extends Object

Created by David Benjamin on 5/13/15.

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	TheoreticalSensitivity.RouletteWheel

Constructor Summary

Constructors

Constructor and Description
TheoreticalSensitivity()

Method Summary

Modifier and Type	Method and Description
static List<ArrayList<Double>>	hetAltDepthDistribution(int N)
static double	hetSNPSensitivity(double[] depthDistribution, double[] qualityDistribution, int sampleSize, double logOddsThreshold)
static double[]	normalizeHistogram(Histogram<Integer> histogram)
static List<ArrayList<Double>>	proportionsAboveThresholds(List<ArrayList<Integer>> lists, List<Double> thresholds)

Methods inherited from class java.lang.Object

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

Constructor Detail

TheoreticalSensitivity

public TheoreticalSensitivity()

Method Detail

hetSNPSensitivity

public static double hetSNPSensitivity(double[] depthDistribution,
                                       double[] qualityDistribution,
                                       int sampleSize,
                                       double logOddsThreshold)

proportionsAboveThresholds

public static List<ArrayList<Double>> proportionsAboveThresholds(List<ArrayList<Integer>> lists,
                                                                 List<Double> thresholds)

hetAltDepthDistribution

public static List<ArrayList<Double>> hetAltDepthDistribution(int N)

normalizeHistogram

public static double[] normalizeHistogram(Histogram<Integer> histogram)