Uses of Interface
org.biojava.bio.taxa.TaxonFactory

Packages that use TaxonFactory
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
 

Methods in org.biojava.bio.seq.db.biosql with parameters of type TaxonFactory
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
 

Constructors in org.biojava.bio.seq.io with parameters of type TaxonFactory
OrganismParser.Factory(SequenceBuilderFactory delegateFactory, TaxonFactory taxonFactory, TaxonParser taxonParser, java.lang.String sciNameKey, java.lang.String commonNameKey, java.lang.String ncbiTaxonKey)
           
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
 

Classes in org.biojava.bio.taxa that implement TaxonFactory
 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
 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.