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Hierarchy For Package org.biojava.bio.dp
Package Hierarchies:
All Packages
Class Hierarchy
class java.lang.Object
class org.biojava.bio.dp.
AbstractTrainer
(implements org.biojava.bio.dp.
TrainingAlgorithm
)
class org.biojava.bio.dp.
BaumWelchSampler
(implements java.io.Serializable)
class org.biojava.bio.dp.
BaumWelchTrainer
(implements java.io.Serializable)
class org.biojava.bio.dp.
DP
class org.biojava.bio.dp.
PairwiseDP
(implements java.io.Serializable)
class org.biojava.bio.dp.
DP.ReverseIterator
(implements java.util.Iterator, java.io.Serializable)
class org.biojava.bio.dp.
DPFactory
class java.util.EventObject (implements java.io.Serializable)
class org.biojava.bio.dp.
ModelChangeEvent
class org.biojava.bio.dp.
TransitionEvent
class org.biojava.bio.dp.
ModelView
(implements org.biojava.bio.dp.
MarkovModel
)
class org.biojava.bio.dp.
ModelView.ViewTransitionTrainer
(implements java.io.Serializable, org.biojava.bio.dp.
TransitionTrainer
)
class org.biojava.bio.dp.
PairDPMatrix
(implements org.biojava.bio.dp.
DPMatrix
, java.io.Serializable)
class org.biojava.bio.symbol.
SimpleAtomicSymbol
(implements org.biojava.bio.symbol.
AtomicSymbol
)
class org.biojava.bio.dp.
SimpleDotState
(implements org.biojava.bio.dp.
DotState
, java.io.Serializable)
class org.biojava.bio.dp.
SimpleModelInState
(implements org.biojava.bio.dp.
ModelInState
)
class org.biojava.bio.dist.
SimpleDistributionTrainerContext
(implements org.biojava.bio.dist.
DistributionTrainerContext
, java.io.Serializable)
class org.biojava.bio.dp.
SimpleModelTrainer
(implements org.biojava.bio.dp.
ModelTrainer
, java.io.Serializable)
class org.biojava.bio.dp.
SimpleEmissionState
(implements org.biojava.bio.dp.
EmissionState
, java.io.Serializable)
class org.biojava.bio.dp.
MagicalState
class org.biojava.bio.dp.
SimpleMarkovModel
(implements org.biojava.bio.dp.
MarkovModel
, java.io.Serializable)
class org.biojava.bio.dp.
ProfileHMM
class org.biojava.bio.dp.
SimpleStatePath
(implements java.io.Serializable, org.biojava.bio.dp.
StatePath
)
class org.biojava.bio.dp.
SimpleTransitionTrainer
(implements java.io.Serializable, org.biojava.bio.dp.
TransitionTrainer
)
class org.biojava.bio.dp.
SimpleWeightMatrix
(implements java.io.Serializable, org.biojava.bio.dp.
WeightMatrix
)
class java.lang.Throwable (implements java.io.Serializable)
class java.lang.Exception
class org.biojava.bio.
BioException
class org.biojava.bio.dp.
IllegalTransitionException
class org.biojava.bio.dp.
ModelVetoException
class org.biojava.bio.dp.
TrainerTransition
(implements java.io.Serializable)
class org.biojava.bio.dp.
Transition
(implements java.io.Serializable)
class org.biojava.bio.dp.
WeightMatrixAnnotator
(implements org.biojava.bio.seq.
SequenceAnnotator
, java.io.Serializable)
class org.biojava.bio.dp.
WMAsMM
(implements org.biojava.bio.dp.
MarkovModel
, java.io.Serializable)
class org.biojava.bio.dp.
XmlMarkovModel
Interface Hierarchy
interface org.biojava.bio.
Annotatable
interface org.biojava.bio.symbol.
Symbol
interface org.biojava.bio.symbol.
AtomicSymbol
interface org.biojava.bio.dp.
State
interface org.biojava.bio.dp.
DotState
interface org.biojava.bio.dp.
EmissionState
(also extends org.biojava.bio.dp.
Trainable
)
interface org.biojava.bio.dp.
ModelInState
(also extends org.biojava.bio.dp.
Trainable
)
interface org.biojava.bio.dist.
DistributionTrainerContext
interface org.biojava.bio.dp.
ModelTrainer
interface org.biojava.bio.dp.
DPMatrix
interface org.biojava.bio.dp.
StoppingCriteria
interface org.biojava.bio.symbol.
SymbolList
interface org.biojava.bio.symbol.
Alignment
interface org.biojava.bio.dp.
StatePath
interface org.biojava.bio.dp.
Trainable
interface org.biojava.bio.dp.
EmissionState
(also extends org.biojava.bio.dp.
State
)
interface org.biojava.bio.dp.
MarkovModel
interface org.biojava.bio.dp.
ModelInState
(also extends org.biojava.bio.dp.
State
)
interface org.biojava.bio.dp.
TrainingAlgorithm
interface org.biojava.bio.dp.
TransitionListener
interface org.biojava.bio.dp.
TransitionTrainer
interface org.biojava.bio.dp.
WeightMatrix
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