Uses of Interface
org.biojavax.bio.taxa.NCBITaxon

Packages that use NCBITaxon

Package	Description
org.biojavax.bio	Classes to represent biological entities and their relationships.
org.biojavax.bio.seq.io	Classes to support the I/O of RichSequence and Bioentry objects.
org.biojavax.bio.taxa	Objects that model the NCBI taxonomy schema as described in the BioSQL schema.
org.biojavax.bio.taxa.io

Uses of NCBITaxon in org.biojavax.bio

Methods in org.biojavax.bio that return NCBITaxon

Modifier and Type	Method	Description
NCBITaxon	BioEntry.getTaxon()	Gets the taxon associated with this bioentry.
NCBITaxon	SimpleBioEntry.getTaxon()	Gets the taxon associated with this bioentry.

Methods in org.biojavax.bio with parameters of type NCBITaxon

Modifier and Type	Method	Description
void	BioEntry.setTaxon(NCBITaxon taxon)	Sets the taxon for this bioentry.
void	SimpleBioEntry.setTaxon(NCBITaxon taxon)	Sets the taxon for this bioentry.

Uses of NCBITaxon in org.biojavax.bio.seq.io

Methods in org.biojavax.bio.seq.io with parameters of type NCBITaxon

Modifier and Type	Method	Description
void	DebuggingRichSeqIOListener.setTaxon(NCBITaxon taxon)
void	RichSeqIOAdapter.setTaxon(NCBITaxon taxon)
void	RichSeqIOListener.setTaxon(NCBITaxon taxon)	Call back method so the event emitter can tell the listener the Taxon of the record being read.
void	SimpleRichSequenceBuilder.setTaxon(NCBITaxon taxon)	Call back method so the event emitter can tell the listener the Taxon of the record being read.

Uses of NCBITaxon in org.biojavax.bio.taxa

Classes in org.biojavax.bio.taxa that implement NCBITaxon

Modifier and Type	Class	Description
class	SimpleNCBITaxon	Reference implementation of NCBITaxon.

Uses of NCBITaxon in org.biojavax.bio.taxa.io

Methods in org.biojavax.bio.taxa.io that return NCBITaxon

Modifier and Type	Method	Description
protected NCBITaxon	SimpleNCBITaxonomyLoader.findTaxon(Object[] theKeys)
NCBITaxon	NCBITaxonomyLoader.readName(BufferedReader names)	Reads the next entry from the names.dmp file and returns the corresponding NCBITaxon object with the name added in already.
NCBITaxon	SimpleNCBITaxonomyLoader.readName(BufferedReader names)	Reads the next entry from the names.dmp file and returns the corresponding NCBITaxon object with the name added in already.
NCBITaxon	NCBITaxonomyLoader.readNode(BufferedReader nodes)	Reads the next entry from the nodes.dmp file and returns the corresponding NCBITaxon object.
NCBITaxon	SimpleNCBITaxonomyLoader.readNode(BufferedReader nodes)	Reads the next entry from the nodes.dmp file and returns the corresponding NCBITaxon object.