Uses of Interface
org.expasy.jpl.commons.collection.symbol.seq.SymbolSequence

Packages that use SymbolSequence

org.expasy.jpl.commons.collection.symbol.seq

Provides generic symbol sequence and associated tools.

Uses of SymbolSequence in org.expasy.jpl.commons.collection.symbol.seq

Classes in org.expasy.jpl.commons.collection.symbol.seq that implement SymbolSequence

class

SymbolSequenceImpl<E> A sequence of symbol letters defined by an alphabet.

Fields in org.expasy.jpl.commons.collection.symbol.seq declared as SymbolSequence

protected SymbolSequence<T>

AbstractSequencePositioner.sequence Iterator will iterate over found positions on this sequence.

Methods in org.expasy.jpl.commons.collection.symbol.seq that return SymbolSequence

SymbolSequence<T>

SequenceMerger.getMergedSequence() get the merged sequence.

Methods in org.expasy.jpl.commons.collection.symbol.seq with parameters of type SymbolSequence

IndexIterable.Iterator	SequenceIterable.iterator(SymbolSequence<T> sequence) coupling sequence with iterator
IndexIterable.Iterator	AbstractSequencePositioner.iterator(SymbolSequence<T> sequence)
void	SequenceSymbolCounter.process(SymbolSequence<T>... sequences)
void	SequenceSymbolCounter.process(SymbolSequence<T> sequence) Compute all the occurrences of a sequence of symbols.
void	SequenceSymbolMergerImpl.process(SymbolSequence<T> seq1, SymbolSequence<T> seq2) concatenate two sequences.
void	SequenceSymbolMergerImpl.process(SymbolSequence<T> seq1, SymbolSequence<T> seq2) concatenate two sequences.
void	SequenceMerger.process(SymbolSequence<T> seq1, SymbolSequence<T> seq2) concatenate two sequences.
void	SequenceMerger.process(SymbolSequence<T> seq1, SymbolSequence<T> seq2) concatenate two sequences.
void	MotifMatcher.setSequence(SymbolSequence<T> sequence) Override setSequence() to convert byte sequence representation to String in order to use Java Regular Expression.
void	SequenceIterable.setSequence(SymbolSequence<T> sequence) sequence over which positions will be retrieved.
void	AbstractSequencePositioner.setSequence(SymbolSequence<T> sequence) Set the sequence for future searches.

Method parameters in org.expasy.jpl.commons.collection.symbol.seq with type arguments of type SymbolSequence

void	SequenceSymbolMergerImpl.process(Collection<SymbolSequence<T>> sequences) Concatenate all sequences.
void	SequenceMerger.process(Collection<SymbolSequence<T>> sequences) concatenate many sequences.
void	SequenceSymbolCounter.process(List<SymbolSequence<T>> sequences) Compute all the occurrences of symbol for a list of symbol sequences