Uses of Class
de.jstacs.data.sequences.SimpleDiscreteSequence

Packages that use SimpleDiscreteSequence

Package	Description
de.jstacs.data.sequences	Provides classes for representing sequences. The implementations of sequences currently include DiscreteSequences prepared for alphabets of different sizes, and ArbitrarySequences that may contain continuous values as well. As sub-package provides the facilities to annotate Sequences.

Uses of SimpleDiscreteSequence in de.jstacs.data.sequences

Subclasses of SimpleDiscreteSequence in de.jstacs.data.sequences

Modifier and Type	Class and Description
class	ByteSequence This class is for sequences with the alphabet symbols encoded as bytes and can therefore be used for discrete AlphabetContainers with alphabets that use only few symbols.
class	IntSequence This class is for sequences with the alphabet symbols encoded as ints and can therefore be used for discrete AlphabetContainers with alphabets that use a huge number of symbols.
class	MappedDiscreteSequence This class allows to map a discrete Sequence to an new Sequence using some DiscreteAlphabetMappings.
class	ShortSequence This class is for sequences with the alphabet symbols encoded as shortss and can therefore be used for discrete AlphabetContainers with alphabets that use many different symbols.
class	SparseSequence This class is an implementation for sequences on one alphabet with length 4.

Fields in de.jstacs.data.sequences declared as SimpleDiscreteSequence

Modifier and Type	Field and Description
protected SimpleDiscreteSequence	MappedDiscreteSequence.original The original Sequence.

Methods in de.jstacs.data.sequences that return SimpleDiscreteSequence

Modifier and Type	Method and Description
static SimpleDiscreteSequence	SimpleDiscreteSequence.shuffle(SimpleDiscreteSequence original, int k) This method implements the algorithm of D.

Methods in de.jstacs.data.sequences with parameters of type SimpleDiscreteSequence

Modifier and Type	Method and Description
static SimpleDiscreteSequence	SimpleDiscreteSequence.shuffle(SimpleDiscreteSequence original, int k) This method implements the algorithm of D.

Constructors in de.jstacs.data.sequences with parameters of type SimpleDiscreteSequence

Constructor and Description
MappedDiscreteSequence(SimpleDiscreteSequence original, DiscreteAlphabetMapping... transformation) This method allows to create a MappedDiscreteSequence from a given Sequence and some given DiscreteAlphabetMappings.
MultiDimensionalDiscreteSequence(SequenceAnnotation[] seqAn, SimpleDiscreteSequence... sequence) This constructor creates an MultiDimensionalDiscreteSequence from a set of individual Sequences.