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See:
Description
Class Summary | |
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Alphabet | Class for an Alphabet. |
Alphabet.AlphabetParameterSet | The super class for the ParameterSet of any Alphabet . |
AlphabetContainer | The container for some alphabets used in a sequence, sample, model or ... . |
AlphabetContainerParameterSet | Class for the ParameterSet of an AlphabetContainer . |
AlphabetContainerParameterSet.AlphabetArrayParameterSet | Class for the parameters of an array of Alphabet s of defined length. |
AlphabetContainerParameterSet.SectionDefinedAlphabetParameterSet | Class for the parameters of an array of Alphabet s where each alphabet may be used for one or more
sections of positions. |
DiscreteSequenceEnumerator | This class enumerates over all sequences of a specific AlphabetContainer and length. |
Sample | This is the class for any sample of sequences. |
Sample.ElementEnumerator | This class can be used to have a fast sequential access to a sample. |
Sample.WeightedSampleFactory | This class enables you to eliminate sequences that occur more than once in one or more samples. |
Sequence | This is the main class for all sequences. |
Sequence.CompositeSequence | The class handles composite sequences. |
Sequence.SubSequence | This class handles subsequences. |
Enum Summary | |
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Sample.PartitionMethod | This enum defines different partition method for a sample. |
Sample.WeightedSampleFactory.SortOperation | This enum defines the different types of sort operation that can be performed while creating a Sample.WeightedSampleFactory . |
Exception Summary | |
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EmptySampleException | An EmptySampleException will be thrown if no sequence is in a Sample (i.e. the Sample is empty). |
WrongLengthException | A WrongLengthException is thrown if a given (sub)sequence length is not correct. |
Provides classes for the representation of data.
The base classes to represent data are Alphabet
and AlphabetContainer
for representing alphabets,
Sequence
and its sub-classes to represent continuous and discrete sequences, and
Sample
to represent samples comprising a set of sequences.
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