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| Interface Summary | |
|---|---|
| Accessioned | Indicates an entity is accessioned |
| ComplementCompound | |
| Compound | |
| CompoundSet<C extends Compound> | |
| CompoundTranslator<F extends Compound,T extends Compound> | |
| LightweightProfile<S extends Sequence<C>,C extends Compound> | Defines a minimal data structure for reading and writing a sequence alignment. |
| ProxySequenceReader<C extends Compound> | |
| Sequence<C extends Compound> | Main interface for defining a collection of Compounds and accessing them using biological indexes |
| SequenceReader<C extends Compound> | |
| SequenceView<C extends Compound> | |
| Class Summary | |
|---|---|
| AbstractCompound | The details of a Compound |
| AbstractCompoundSet<C extends Compound> | |
| AbstractCompoundTranslator<F extends Compound,T extends Compound> | |
| AbstractNucleotideCompoundSet<C extends NucleotideCompound> | |
| AbstractSequence<C extends Compound> | The base class for DNA, RNA and Protein sequences. |
| SequenceMixin | Provides a set of static methods to be used as static imports when needed across multiple Sequence implementations but inheritance gets in the way. |
| SequenceMixin.SequenceIterator<C extends Compound> | A basic sequence iterator which iterates over the given Sequence by biological index. |
| SequenceProxyView<C extends Compound> | |
| Enum Summary | |
|---|---|
| AbstractSequence.AnnotationType | |
| LightweightProfile.StringFormat | List of output formats. |
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