Package org.snpeff.stats

Class PosStats

java.lang.Object

org.snpeff.stats.ChrPosStats

org.snpeff.stats.PosStats

public class PosStats
extends ChrPosStats

How many changes per position do we have in a chromosome. Summary by dividing the chromosome into MAX_BINS bins

Author:

pcingola

Field Summary

Fields

Modifier and Type	Field	Description
static int	DEFAULT_BINS

Fields inherited from class org.snpeff.stats.ChrPosStats

debug

Constructor Summary

Constructors

Constructor	Description
PosStats()
PosStats(java.lang.String name)
PosStats(java.lang.String name, int maxBins)

Method Summary

Modifier and Type	Method	Description
void	rand(int maxLen, int countMax)	Create random counts (used for debugging)
void	sample(Marker marker, Marker markerReference)	Use 'num' as a sample
int	size()

Methods inherited from class org.snpeff.stats.ChrPosStats

getCount, getTotal, posArray, sample, toString, toStringHistoPlot

Methods inherited from class java.lang.Object

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

Field Detail

DEFAULT_BINS

public static final int DEFAULT_BINS

See Also:

Constant Field Values

Constructor Detail

PosStats

public PosStats()

PosStats

public PosStats(java.lang.String name)

PosStats

public PosStats(java.lang.String name,
                int maxBins)

Method Detail

rand

public void rand(int maxLen,
                 int countMax)

Create random counts (used for debugging)

Parameters:

maxLen -

countMax -

sample

public void sample(Marker marker,
                   Marker markerReference)

Use 'num' as a sample

size

public int size()

Overrides:

size in class ChrPosStats