DNAAlphabet for the most common case of DNA-sequences.See: Description
| Class | Description |
|---|---|
| Alphabet |
Class for a set of symbols, i.e.
|
| Alphabet.AlphabetParameterSet<T extends Alphabet> |
The super class for the
InstanceParameterSet of any
Alphabet. |
| ComplementableDiscreteAlphabet |
This abstract class indicates that an alphabet can be used to compute the
complement.
|
| ContinuousAlphabet |
Class for a continuous alphabet.
|
| ContinuousAlphabet.ContinuousAlphabetParameterSet |
Class for the
ParameterSet of a
ContinuousAlphabet. |
| DiscreteAlphabet |
Class for an alphabet that consists of arbitrary
Strings. |
| DiscreteAlphabet.DiscreteAlphabetParameterSet |
Class for the
ParameterSet of a
DiscreteAlphabet. |
| DiscreteAlphabetMapping |
This class implements the transformation of discrete values to other discrete values
which define a
DiscreteAlphabet. |
| DNAAlphabet |
This class implements the discrete alphabet that is used for DNA.
|
| DNAAlphabet.DNAAlphabetParameterSet |
The parameter set for a
DNAAlphabet. |
| DNAAlphabetContainer |
This class implements a singleton for an
AlphabetContainer that can be used for DNA. |
| DNAAlphabetContainer.DNAAlphabetContainerParameterSet |
This class implements a singleton for the
ParameterSet of a DNAAlphabetContainer. |
| GenericComplementableDiscreteAlphabet |
This class implements an generic complementable discrete alphabet.
|
| GenericComplementableDiscreteAlphabet.GenericComplementableDiscreteAlphabetParameterSet |
This class is used as container for the parameters of a
GenericComplementableDiscreteAlphabet. |
| ProteinAlphabet |
This class implements the discrete alphabet that is used for proteins (one letter code).
|
| ProteinAlphabet.ProteinAlphabetParameterSet |
The parameter set for a
ProteinAlphabet. |
| Exception | Description |
|---|---|
| DoubleSymbolException |
A
DoubleSymbolException is thrown if a symbol occurred more than once
in an alphabet. |
DNAAlphabet for the most common case of DNA-sequences.