## Uses of Interface
org.biojava.bio.seq.io.SequenceBuilderFactory

Packages that use SequenceBuilderFactory
org.biojava.bio.seq.db: Collections of biological sequence data.
org.biojava.bio.seq.io: Classes and interfaces for processing and producing flat-file representations of sequences.

Uses of SequenceBuilderFactory in org.biojava.bio.seq.db

Methods in org.biojava.bio.seq.db that return SequenceBuilderFactory
`SequenceBuilderFactory` `EmblCDROMIndexStore.getSBFactory()`
`SequenceBuilderFactory` `TabIndexStore.getSBFactory()`
`SequenceBuilderFactory` `IndexStore.getSBFactory()` Retrieve the SequenceBuilderFactory used to build Sequence instances.
`SequenceBuilderFactory` `BioIndex.getSBFactory()`

Constructors in org.biojava.bio.seq.db with parameters of type SequenceBuilderFactory
`EmblCDROMIndexStore(java.io.File divisionLkp, java.io.File entryNamIdx, SequenceFormat format, SequenceBuilderFactory factory, SymbolTokenization parser)` Creates a new `EmblCDROMIndexStore` backed by a random access binary index.
`EmblCDROMIndexStore(java.io.File pathPrefix, java.io.File divisionLkp, java.io.File entryNamIdx, SequenceFormat format, SequenceBuilderFactory factory, SymbolTokenization parser)` Creates a new `EmblCDROMIndexStore` backed by a random access binary index.
`TabIndexStore(java.io.File storeFile, java.io.File indexFile, java.lang.String name, SequenceFormat format, SequenceBuilderFactory sbFactory, SymbolTokenization symbolParser)`

Uses of SequenceBuilderFactory in org.biojava.bio.seq.io

Classes in org.biojava.bio.seq.io that implement SequenceBuilderFactory
`static class` `EmblProcessor.Factory` Factory which wraps SequenceBuilders in an EmblProcessor
`static class` `FastaDescriptionLineParser.Factory` Factory which wraps SequenceBuilders in a FastaDescriptionLineParser
`static class` `GenbankProcessor.Factory` Factory which wraps sequence builders in a GenbankProcessor
`static class` `OrganismParser.Factory` Factory which wraps SequenceBuilders in an OrganismParser.
`static class` `ProteinRefSeqProcessor.Factory` Factory which wraps sequence builders in a ProteinRefSeqProcessor
`static class` `SwissprotProcessor.Factory` Factory which wraps SequenceBuilders in a SwissprotProcessor

Fields in org.biojava.bio.seq.io declared as SequenceBuilderFactory
`static SequenceBuilderFactory` `SimpleSequenceBuilder.FACTORY`
`static SequenceBuilderFactory` `SimpleAssemblyBuilder.FACTORY`
`static SequenceBuilderFactory` `SmartSequenceBuilder.FACTORY`

Methods in org.biojava.bio.seq.io that return SequenceBuilderFactory
`static SequenceBuilderFactory` `SeqIOTools.getEmblBuilderFactory()` Get a default SequenceBuilderFactory for handling EMBL files.
`static SequenceBuilderFactory` `SeqIOTools.getGenbankBuilderFactory()` Get a default SequenceBuilderFactory for handling GenBank files.
`static SequenceBuilderFactory` `SeqIOTools.getGenpeptBuilderFactory()` Get a default SequenceBuilderFactory for handling Genpept files.
`static SequenceBuilderFactory` `SeqIOTools.getSwissprotBuilderFactory()` Get a default SequenceBuilderFactory for handling Swissprot files.
`static SequenceBuilderFactory` `SeqIOTools.getFastaBuilderFactory()` Get a default SequenceBuilderFactory for handling FASTA files.
`static SequenceBuilderFactory` `SeqIOTools.getBuilderFactory(int identifier)` `getBuilderFactory` accepts a value which represents a sequence format and returns the relevant `SequenceBuilderFactory` object.
`static SequenceBuilderFactory` `SeqIOTools.formatToFactory(SequenceFormat format, Alphabet alpha)` Deprecated. as this essentially duplicates the operation available in the method `identifyBuilderFactory`.

Constructors in org.biojava.bio.seq.io with parameters of type SequenceBuilderFactory
`StreamReader(java.io.InputStream is, SequenceFormat format, SymbolTokenization symParser, SequenceBuilderFactory sf)`
`StreamReader(java.io.BufferedReader reader, SequenceFormat format, SymbolTokenization symParser, SequenceBuilderFactory sf)`
`FastaDescriptionLineParser.Factory(SequenceBuilderFactory delegateFactory)`
`EmblProcessor.Factory(SequenceBuilderFactory delegateFactory)`
`SwissprotProcessor.Factory(SequenceBuilderFactory delegateFactory)`
`GenbankProcessor.Factory(SequenceBuilderFactory theDelegate)`
`OrganismParser.Factory(SequenceBuilderFactory delegateFactory, TaxonFactory taxonFactory, TaxonParser taxonParser, java.lang.String sciNameKey, java.lang.String commonNameKey, java.lang.String ncbiTaxonKey)`
`ProteinRefSeqProcessor.Factory(SequenceBuilderFactory theDelegate)`