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Packages that use Alphabet | |
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de.jstacs.data | Provides classes for the representation of data. |
de.jstacs.data.alphabets | Provides classes for the representation of discrete and continuous alphabets, including a DNAAlphabet for the most common case of DNA-sequences |
Uses of Alphabet in de.jstacs.data |
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Methods in de.jstacs.data that return Alphabet | |
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Alphabet |
AlphabetContainer.getAlphabetAt(int pos)
Returns the underlying Alphabet of position pos . |
Methods in de.jstacs.data with parameters of type Alphabet | |
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boolean |
Alphabet.checkConsistency(Alphabet a)
Checks if this Alphabet is consistent consistent with another
Alphabet , i.e. both Alphabet s use the same symbols. |
static AlphabetContainer |
AlphabetContainer.getSimplifiedAlphabetContainer(Alphabet[] abc,
int[] assignment)
This method creates a new AlphabetContainer that uses as less as
possible Alphabet s to describe the container. |
static AlphabetContainer |
AlphabetContainer.insertAlphabet(AlphabetContainer aC,
Alphabet a,
boolean[] useNewAlphabet)
This method may be used to construct a new AlphabetContainer by
incorporating additional Alphabet s into an existing
AlphabetContainer . |
Constructor parameters in de.jstacs.data with type arguments of type Alphabet | |
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Alphabet.AlphabetParameterSet(Class<? extends Alphabet> instanceClass)
Creates a new Alphabet.AlphabetParameterSet from the class that can be
instantiated using this Alphabet.AlphabetParameterSet . |
Uses of Alphabet in de.jstacs.data.alphabets |
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Subclasses of Alphabet in de.jstacs.data.alphabets | |
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class |
ComplementableDiscreteAlphabet
This abstract class indicates that an alphabet can be used to compute the complement. |
class |
ContinuousAlphabet
Class for a continuous alphabet. |
class |
DiscreteAlphabet
Class for an alphabet that consists of arbitrary String s. |
class |
DNAAlphabet
This class implements the discrete alphabet that is used for DNA. |
class |
GenericComplementableDiscreteAlphabet
This class implements an generic complementable discrete alphabet. |
Methods in de.jstacs.data.alphabets with parameters of type Alphabet | |
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int |
DiscreteAlphabet.compareTo(Alphabet b)
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int |
ContinuousAlphabet.compareTo(Alphabet a)
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