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DNAAlphabet
for the most common case of DNA-sequences
See:
Description
Class Summary | |
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Alphabet | Class for a set of symbols, i.e. an Alphabet . |
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 String s. |
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 Summary | |
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DoubleSymbolException | A DoubleSymbolException is thrown if a symbol occurred more than once
in an alphabet. |
Provides classes for the representation of discrete and continuous alphabets, including a DNAAlphabet
for the most common case of DNA-sequences.
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