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