org.biojava.bio.program.hmmer
Class ProfileEmissionState
java.lang.Object
org.biojava.utils.AbstractChangeable
org.biojava.bio.dp.SimpleEmissionState
org.biojava.bio.program.hmmer.ProfileEmissionState
- All Implemented Interfaces:
- Serializable, Annotatable, EmissionState, State, Trainable, AtomicSymbol, BasisSymbol, Symbol, Changeable
public class ProfileEmissionState
- extends SimpleEmissionState
A state in a HMMer model.
- See Also:
- Serialized Form
Methods inherited from class org.biojava.bio.dp.SimpleEmissionState |
getAdvance, getAnnotation, getBases, getChangeSupport, getDistribution, getMatches, getName, getSymbols, getToken, registerWithTrainer, setAdvance, setAnnotation, setDistribution, setName |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
ProfileEmissionState
public ProfileEmissionState(String str,
Annotation ann,
int[] adv,
Distribution dis)
logProb
public double logProb(Symbol sym)
throws IllegalSymbolException
- Throws:
IllegalSymbolException
log2
protected static double log2(double x)