Package imp

Class ImpLS

java.lang.Object

imp.ImpLS

public final class ImpLS
extends java.lang.Object

Class ImpLS computes HMM state probabilities at genotyped markers in the target haplotypes.

Instances of class ImpLS are thread-safe.

Method Summary

Modifier and Type	Method	Description
static java.util.concurrent.atomic.AtomicReferenceArray<StateProbs>	stateProbs(ImpData impData)	Returns estimated HMM state probabilities at genotyped markers for each target haplotype.

Methods inherited from class java.lang.Object

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

Method Detail

stateProbs

public static java.util.concurrent.atomic.AtomicReferenceArray<StateProbs> stateProbs(ImpData impData)

Returns estimated HMM state probabilities at genotyped markers for each target haplotype. The returned array maps each target haplotype index to the target haplotype's HMM state probabilities.

Parameters:

impData - the input data for genotype imputation

Returns:

a list of HMM state probabilities at genotyped markers for each target haplotype.

Throws:

java.lang.NullPointerException - if impData == null