Uses of Class
org.biojava.utils.stax.StAXContentHandlerBase
Packages that use StAXContentHandlerBase
Package
Description
Parsers for the XML output from NCBI blast.
Creation of objects from SAX events using the BioJava BlastLikeDataSetCollection DTD.
Event-driven parsing system for the Extensible Feature Format (XFF).
Tools for reading and writing an XML representation of BioJava's FeatureFilter language.
Event-driven parsing system for the Gene Annotation Markup Elements (GAME).
Event-driven parsing system for the Gene Annotation Markup Elements (GAME).
The Stack API for XML (StAX).
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Uses of StAXContentHandlerBase in org.biojava.bio.program.sax.blastxml
Subclasses of StAXContentHandlerBase in org.biojava.bio.program.sax.blastxml -
Uses of StAXContentHandlerBase in org.biojava.bio.program.ssbind
Subclasses of StAXContentHandlerBase in org.biojava.bio.program.ssbindModifier and TypeClassDescriptionclass
AlignmentStAXHandler
handles the BlastLikeAlignment element of BioJava BlastLike XML.class
HeaderStAXHandler
handles the Header element of BioJava BlastLike XML.class
AlignmentStAXHandler
handles the Hit element of BioJava BlastLike XML.class
HSPStAXHandler
handles the HSP element of BioJava BlastLike XML.class
HSPSummaryStAXHandler
handles the HSPSummary element of BioJava BlastLike XML.class
SeqSimilarityStAXAdapter
is a handler for XML conforming to the BioJava BlastLike DTD.class
SeqSimilarityStAXHandler
is a base class for creating modular StAX handlers which send callbacks to aSeqSimilarityStAXAdapter
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Uses of StAXContentHandlerBase in org.biojava.bio.program.xff
Subclasses of StAXContentHandlerBase in org.biojava.bio.program.xffModifier and TypeClassDescriptionclass
StAX handler for the basicfeature
type of XFF.class
Handler to the XFF location type.class
StAX handler for xff:prop detail elements.class
StAX handler for XFF strandedFeature type.class
StAX handler which converts and stream of parse events for an XFF featureSet element into BioJava SeqIO events.Methods in org.biojava.bio.program.xff that return StAXContentHandlerBaseModifier and TypeMethodDescriptionXFFFeatureSetHandler.getDetailsHandler()
Return a handler for the XFFdetails
element. -
Uses of StAXContentHandlerBase in org.biojava.bio.seq.io.filterxml
Subclasses of StAXContentHandlerBase in org.biojava.bio.seq.io.filterxmlModifier and TypeClassDescriptionclass
StAX handler for parsing AnnotationTypes in FilterXML documents. -
Uses of StAXContentHandlerBase in org.biojava.bio.seq.io.game
Subclasses of StAXContentHandlerBase in org.biojava.bio.seq.io.gameModifier and TypeClassDescriptionclass
Handles the GAME <annotation> elementclass
Handles the GAME <aspect> elementclass
Deals with database crossreferencesclass
StAX handler for GAME <description> elements.class
Handles the <feature_set> elementclass
Handles the GAMEelement class
Handles the <feature_span> elementclass
Handles the GAME <gene> elementclass
Handles the root GAME elementclass
Handles the GAME <map_position> element Currently, it just ignores it!class
StAX handler for the GAME <name> element.class
StAX handler for GAME <residues> elements.class
Handles the GAME <seq> elementclass
Handles the GAME <aspect> elementclass
Handles the GAME <span> element Currently, it just ignores it!class
StAX handler for GAME <type> elements.class
StAX handler for elements containing sequenceclass
StAX handler shamelessly ripped off from Thomas Down's XFFFeatureSetHandler.class
StAX handler shamelessly ripped off from Thomas Down's XFFFeatureSetHandler. -
Uses of StAXContentHandlerBase in org.biojava.bio.seq.io.game12
Subclasses of StAXContentHandlerBase in org.biojava.bio.seq.io.game12Modifier and TypeClassDescriptionclass
Handles the GAME <annotation> elementclass
Handles the GAME <aspect> elementclass
Handles the GAME <dbxref> elementclass
Handles the GAME <feature_set> element this element is used to represent transcripts.class
Handles the GAME <feature_span> elementclass
class
Handles the GAME <annotation> elementclass
Handles the root GAME elementclass
Handles the GAME <dbxref> elementclass
Handles the GAME <seq> elementclass
Handles the GAME <> element class
Handles the GAME <> element.class
StAX handler shamelessly ripped off from Thomas Down's XFFFeatureSetHandler. -
Uses of StAXContentHandlerBase in org.biojava.utils.stax
Subclasses of StAXContentHandlerBase in org.biojava.utils.staxModifier and TypeClassDescriptionclass
StAX handler for any element which just contains a string representation of an boolean.class
StAX handler for any element which just contains a string representation of a byte.class
StAX handler for any element which just contains a string representation of a char.class
StAX handler for any element which just contains a string representation of a double.class
StAX handler for any element which just contains a string representation of a float.class
StAX handler for any element which just contains a string representation of an integer.class
StAX handler for any element which just contains a string representation of a long.class
StAX handler for any element which just contains a string.