org.biojava.bio.seq.io

Interfaces

• AlignmentFormat
• SeqFileFormer
• SeqIOListener
• SequenceBuilder
• SequenceBuilderFactory
• SequenceFormat
• StreamParser
• SymbolReader
• SymbolTokenization

Classes

• AlignIOConstants
• AlternateTokenization
• CharacterTokenization
• ChunkedSymbolListFactory
• CrossProductTokenization
• DoubleTokenization
• EmblFileFormer
• EmblLikeFormat
• EmblLikeLocationParser
• EmblProcessor
• EmblProcessor.Factory
• EmblReferenceComparator
• FastaAlignmentFormat
• FastaDescriptionLineParser
• FastaDescriptionLineParser.Factory
• FastaFormat
• FeatureTableParser
• GAMEFormat
• GenbankFileFormer
• GenbankFormat
• GenbankProcessor
• GenbankProcessor.Factory
• GenbankXmlFormat
• GenEmblFeatureComparator
• GenEmblPropertyComparator
• GenpeptFormat
• IntegerTokenization
• MSFAlignmentFormat
• NameTokenization
• OrganismParser
• OrganismParser.Factory
• ProteinRefSeqFileFormer
• ProteinRefSeqProcessor
• ProteinRefSeqProcessor.Factory
• ReferenceAnnotation
• SeqIOAdapter
• SeqIOConstants
• SeqIOEventEmitter
• SeqIOFilter
• SeqIOTools
• SequenceBuilderBase
• SequenceBuilderFilter
• SequenceDBSequenceBuilder
• SimpleAssemblyBuilder
• SimpleSequenceBuilder
• SmartSequenceBuilder
• StreamReader
• StreamWriter
• SubIntegerTokenization
• SwissprotFileFormer
• SwissprotProcessor
• SwissprotProcessor.Factory
• SymbolListCharSequence
• SymbolTokenization.TokenType
• WordTokenization

Exceptions

• ParseException