Uses of Package
org.biojava.nbio.core.sequence.template
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Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.aaproperties.xml Class Description CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.alignment Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.alignment.io Class Description AbstractCompound The details of a CompoundAbstractSequence The base class for DNA, RNA and Protein sequences. -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.alignment.routines Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.alignment.template Class Description Compound CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.alignment Class Description Accessioned Indicates an entity is accessionedCompound CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.alignment.matrices Class Description Compound CompoundSet -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.alignment.template Class Description Accessioned Indicates an entity is accessionedCompound CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.search.io Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.search.io.blast Class Description Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Accessioned Indicates an entity is accessionedCompound CompoundSet LightweightProfile Defines a minimal data structure for reading and writing a sequence alignment.LightweightProfile.StringFormat List of output formats.ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceReader SequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.compound Class Description AbstractCompound The details of a CompoundAbstractCompoundSet AbstractNucleotideCompoundSet ComplementCompound Compound CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.edits Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.features Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Compound -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.io Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Compound CompoundSet ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.io.template Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Compound ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.io.util Class Description Compound CompoundSet Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.loader Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Accessioned Indicates an entity is accessionedCompound CompoundSet ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceReader SequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.location Class Description AbstractSequence The base class for DNA, RNA and Protein sequences.Accessioned Indicates an entity is accessionedCompound -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.location.template Class Description Accessioned Indicates an entity is accessionedCompound ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.storage Class Description Accessioned Indicates an entity is accessionedCompound CompoundSet ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceReader SequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.template Class Description AbstractCompoundSet AbstractSequence The base class for DNA, RNA and Protein sequences.AbstractSequence.AnnotationType Accessioned Indicates an entity is accessionedComplementCompound Compound CompoundSet CompoundTranslator LightweightProfile.StringFormat List of output formats.Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceReader SequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.transcription Class Description AbstractCompoundTranslator Compound CompoundSet CompoundTranslator Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.sequence.views Class Description Accessioned Indicates an entity is accessionedComplementCompound Compound CompoundSet ProxySequenceReader Sequence Main interface for defining a collection of Compounds and accessing them using biological indexesSequenceProxyView SequenceReader SequenceView -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.core.util Class Description Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.genome.io.fastq Class Description AbstractSequence The base class for DNA, RNA and Protein sequences. -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.phylo Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.structure Class Description Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.structure.io Class Description Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.ws.alignment Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes -
Classes in org.biojava.nbio.core.sequence.template used by org.biojava.nbio.ws.alignment.qblast Class Description Compound Sequence Main interface for defining a collection of Compounds and accessing them using biological indexes