ImpLSBaum

java.lang.Object
- imp.ImpLSBaum

```
public class ImpLSBaum
extends java.lang.Object
```
Class ImpLSBaum implements a Baum hidden Markov model forward and backward algorithms for computing HMM state probabilities at genotyped markers using IBS-matched reference haplotypes.

Instances of class ImpLSBaum are not thread-safe.

Constructor Summary

Constructors
Constructor Description

ImpLSBaum(ImpData impData, ImpIbs ibsHaps)
Creates a LSHapBaum instance from the specified data.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`ImpData`	`impData()`	Return the input data for genotype imputation
`StateProbs`	`impute(int targHap)`	Returns HMM state probabilities at genotyped markers for the specified target haplotype.

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - ImpLSBaum
```
public ImpLSBaum(ImpData impData,
                 ImpIbs ibsHaps)
```
    Creates a LSHapBaum instance from the specified data.
    
    Parameters:
    
    impData - the input data for genotype imputation
    
    ibsHaps - the IBS haplotype segments
    
    Throws:
    
    java.lang.NullPointerException - if impData == null || ibsStates == null
- Method Detail
  - impute
```
public StateProbs impute(int targHap)
```
    Returns HMM state probabilities at genotyped markers for the specified target haplotype. States with probabilities that are small and inconsequential are excluded from the returned state probabilities.
    
    Parameters:
    
    targHap - a target haplotype index
    
    Returns:
    
    HMM state probabilities at genotyped markers for the specified target haplotype
    
    Throws:
    
    java.lang.IndexOutOfBoundsException - if targHap < 0 || hap >= this.impData().nTargHaps()
  - impData
```
public ImpData impData()
```
    Return the input data for genotype imputation
    
    Returns:
    
    the input data for genotype imputation