alun.mcld
Class PerfectHaplotypes

java.lang.Object
  alun.mcld.PerfectHaplotypes

All Implemented Interfaces:

DataHaplotypeSource, HaplotypeSource

Direct Known Subclasses:

ImperfectHaplotypes, TransposedPerfectHaplotypes

public class PerfectHaplotypes
extends java.lang.Object
implements DataHaplotypeSource

Constructor Summary

PerfectHaplotypes()

PerfectHaplotypes(InputFormatter f)

Method Summary

int	getAllele(int i, int j)
int[]	getHaplotype(int i)
java.util.Collection<Locus>	getLoci()
static void	main(java.lang.String[] args) Test main.
boolean	maximize(LDModel m)
int	nAlleles(int i)
int	nHaplotypes()
int	nLoci()
java.lang.String	toString()
boolean	update(LDModel m)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

PerfectHaplotypes

public PerfectHaplotypes()

PerfectHaplotypes

public PerfectHaplotypes(InputFormatter f)
                  throws java.io.IOException

Throws:

java.io.IOException

Method Detail

getLoci

public java.util.Collection<Locus> getLoci()

Specified by:

getLoci in interface HaplotypeSource

nHaplotypes

public int nHaplotypes()

Specified by:

nHaplotypes in interface DataHaplotypeSource

nLoci

public int nLoci()

Specified by:

nLoci in interface HaplotypeSource

nAlleles

public int nAlleles(int i)

Specified by:

nAlleles in interface HaplotypeSource

getHaplotype

public int[] getHaplotype(int i)

Specified by:

getHaplotype in interface DataHaplotypeSource

getAllele

public int getAllele(int i,
                     int j)

Specified by:

getAllele in interface DataHaplotypeSource

update

public boolean update(LDModel m)

Specified by:

update in interface HaplotypeSource

maximize

public boolean maximize(LDModel m)

Specified by:

maximize in interface HaplotypeSource

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

main

public static void main(java.lang.String[] args)

Test main.