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Packages that use TaxonFactory | |
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org.biojava.bio.seq.db.biosql | General purpose Sequence storage in a relational database. |
org.biojava.bio.seq.io | Classes and interfaces for processing and producing flat-file representations of sequences. |
org.biojava.bio.taxa | Taxonomy object for representing species information. |
Uses of TaxonFactory in org.biojava.bio.seq.db.biosql |
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Methods in org.biojava.bio.seq.db.biosql with parameters of type TaxonFactory | |
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static void |
TaxonSQL.automaticUpdate(java.sql.Connection conn,
DBHelper helper,
TaxonFactory factory,
java.io.File delnodes,
java.io.File merged)
Deprecated. This method tries to perform a complete update according to the given TaxonFactory , which already contains the newes taxa and the files
available at the NCBI-FTP-Site. |
Uses of TaxonFactory in org.biojava.bio.seq.io |
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Constructors in org.biojava.bio.seq.io with parameters of type TaxonFactory | |
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OrganismParser.Factory(SequenceBuilderFactory delegateFactory,
TaxonFactory taxonFactory,
TaxonParser taxonParser,
java.lang.String sciNameKey,
java.lang.String commonNameKey,
java.lang.String ncbiTaxonKey)
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OrganismParser(SequenceBuilder delegate,
TaxonFactory taxonFactory,
TaxonParser taxonParser,
java.lang.String sciNameKey,
java.lang.String commonNameKey,
java.lang.String ncbiTaxonKey)
Deprecated. |
Uses of TaxonFactory in org.biojava.bio.taxa |
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Classes in org.biojava.bio.taxa that implement TaxonFactory | |
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class |
SimpleTaxonFactory
Deprecated. replaced by classes in org.biojavax.bio.taxa |
class |
WeakTaxonFactory
Deprecated. replaced by classes in org.biojavax.bio.taxa |
Methods in org.biojava.bio.taxa with parameters of type TaxonFactory | |
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Taxon |
EbiFormat.parse(TaxonFactory taxonFactory,
java.lang.String taxonString)
Deprecated. |
Taxon |
TaxonParser.parse(TaxonFactory taxonFactory,
java.lang.String taxonString)
Deprecated. Convert a stringified Taxon into a Taxon instance. |
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