com.wcohen.ss.abbvGapsHmm

Class AbbreviationAlignmentContainer<T extends Enum<T>,S extends Enum<S>>

java.lang.Object

com.wcohen.ss.abbvGapsHmm.AbbreviationAlignmentContainer<T,S>

public class AbbreviationAlignmentContainer<T extends Enum<T>,S extends Enum<S>>
extends Object

Author:

Dana Movshovitz-Attias

Method Summary

Modifier and Type	Method and Description
Acronym	getAcronym()
int	getAcronymScore()
List<String>	getLAlign()
int	getNumDeletionsInAcronym()
Double	getProbability()
List<String>	getSAlign()
protected String	getStrByEmission(String str, T emission)
List<T>	retrunBestStates()
String	toString()
String	toStringNoStates()
String	toStringWithEmissions()
String	toStringWithStates()

Methods inherited from class java.lang.Object

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

Method Detail

getProbability

public Double getProbability()

getLAlign

public List<String> getLAlign()

getSAlign

public List<String> getSAlign()

retrunBestStates

public List<T> retrunBestStates()

getStrByEmission

protected String getStrByEmission(String str,
                                  T emission)

getAcronym

public Acronym getAcronym()

getAcronymScore

public int getAcronymScore()

getNumDeletionsInAcronym

public int getNumDeletionsInAcronym()

toString

public String toString()

Overrides:

toString in class Object

toStringNoStates

public String toStringNoStates()

toStringWithStates

public String toStringWithStates()

toStringWithEmissions

public String toStringWithEmissions()