Uses of Class
org.biojava.bio.seq.io.agave.StAXContentHandlerBase

Packages that use StAXContentHandlerBase

Package	Description
org.biojava.bio.seq.io.agave	Classes for converting between AGAVE XML and BioJava objects.

Uses of StAXContentHandlerBase in org.biojava.bio.seq.io.agave

Subclasses of StAXContentHandlerBase in org.biojava.bio.seq.io.agave

Modifier and Type	Class	Description
class	AGAVEAltIdsPropHandler	Deals with alternate sequence IDs
class	AGAVEAnnotationsHandler
class	AGAVEAssemblyHandler
class	AGAVEBioSeqHandler	Handles the AGAVE <bio_sequence> element
class	AGAVEBioSequenceHandler	Handles the AGAVE <bio_sequence> element
class	AGAVECdsHandler	Handles the AGAVE <cds> element
class	AGAVEChromosomeHandler	Handles the AGAVE <chromosome> element
class	AGAVEClassificationHandler
class	AGAVECompResultHandler
class	AGAVEComputationHandler
class	AGAVEContigHandler	Handles the AGAVE <contig> element
class	AGAVEDbIdPropHandler	Deals with database crossreferences
class	AGAVEDescPropHandler	Deals with database crossreferences
class	AGAVEElementIdPropHandler
class	AGAVEEvidenceHandler
class	AGAVEExonsPropHandler
class	AGAVEFragmentOrderHandler
class	AGAVEFragmentOrientationHandler
class	AGAVEGeneHandler
class	AGAVEHandler	Handles the root AGAVE element modified for agave format
class	AGAVEIdAliasPropHandler
class	AGAVEKeywordPropHandler	Deals with AGAVE keywords
class	AGAVEMapLocationPropHandler
class	AGAVEMapPositionPropHandler
class	AGAVEMatchAlignPropHandler	Deals with match_align
class	AGAVEMatchDescPropHandler	Deals with match_desc
class	AGAVEMatchRegionPropHandler	Deals with match_region
class	AGAVEMrnaHandler	Handles the AGAVE <mrna> element
class	AGAVENotePropHandler	Deals with note
class	AGAVEPredictedProteinHandler	Handles the AGAVE <predicted_protein> element
class	AGAVEQualifierPropHandler
class	AGAVEQueryRegionPropHandler
class	AGAVERelatedAnnotPropHandler
class	AGAVEResultGroupHandler
class	AGAVEResultPropertyPropHandler
class	AGAVESciPropertyPropHandler	sci_property
class	AGAVESeqFeatureHandler	seq_feature
class	AGAVESeqLocationPropHandler	seq_location
class	AGAVESeqMapHandler	sequence_map
class	AGAVESeqPropHandler	Deals with sequence code
class	AGAVETranscriptHandler	transcript
class	AGAVEUnorderedFragmentsHandler	unordered_fragments
class	AGAVEViewPropHandler	Moves view attributes into annotation properties.
class	AGAVEXrefPropHandler	handle AGAVE xref
class	AGAVEXrefPropPropHandler	xref_property
class	AGAVEXrefsPropHandler	Deals with database crossreferences (xrefs)
class	StAXFeatureHandler	StAX handler shamelessly ripped off from Thomas Down's XFFFeatureSetHandler.
class	StAXPropertyHandler	StAX handler shamelessly ripped off from Thomas Down's XFFFeatureSetHandler.