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Packages that use SearchContentHandler | |
org.biojava.bio.program.sax | Parsers which offer XML representations of the output from common bioinformatics tools. |
org.biojava.bio.program.ssbind | Creation of objects from SAX events using the BioJava BlastLikeDataSetCollection DTD. |
org.biojava.bio.search | Interfaces and classes for representing sequence similarity search results. |
Uses of SearchContentHandler in org.biojava.bio.program.sax |
Classes in org.biojava.bio.program.sax that implement SearchContentHandler | |
class |
FastaSearchSAXParser
FastaSearchSAXParser is a SAX2 compliant parser for
'-m 10' format output from the the Fasta search program (see the
Fasta documentation for details of this format). |
Uses of SearchContentHandler in org.biojava.bio.program.ssbind |
Classes in org.biojava.bio.program.ssbind that implement SearchContentHandler | |
class |
BlastLikeHomologyBuilder
BlastLikeHomologyBuilder populates a
List with Homology instances created from
SAX events supplied via a SeqSimilarityAdapter . |
class |
BlastLikeSearchBuilder
BlastLikeSearchBuilder will create
SeqSimilaritySearchResult s from SAX events via a
SeqSimilarityAdapter . |
class |
SimilarityPairBuilder
SimilarityPairBuilder annotates query and subject
Sequence with SimilarityPairFeature s
created from SAX events supplied via a
SeqSimilarityAdapter . |
Methods in org.biojava.bio.program.ssbind that return SearchContentHandler | |
SearchContentHandler |
SeqSimilarityAdapter.getSearchContentHandler()
getSearchContentHandler gets the handler which
will recieve the method calls generated by the adapter. |
SearchContentHandler |
SeqSimilarityStAXAdapter.getSearchContentHandler()
getSearchContentHandler gets the handler which
will recieve the method calls generated by the adapter. |
Methods in org.biojava.bio.program.ssbind with parameters of type SearchContentHandler | |
void |
SeqSimilarityAdapter.setSearchContentHandler(SearchContentHandler scHandler)
setSearchContentHandler sets the handler which
will recieve the method calls generated by the adapter. |
void |
SeqSimilarityStAXAdapter.setSearchContentHandler(SearchContentHandler scHandler)
setSearchContentHandler sets the handler which
will recieve the method calls generated by the adapter. |
Uses of SearchContentHandler in org.biojava.bio.search |
Subinterfaces of SearchContentHandler in org.biojava.bio.search | |
interface |
SearchBuilder
The SearchBuilder interface is to be used by objects
which accumulate state via a SearchContentHandler and
then construct a SeqSimilaritySearchResult object. |
Classes in org.biojava.bio.search that implement SearchContentHandler | |
class |
SearchContentAdapter
An adapter for SearchContentHandler. |
class |
SearchContentFilter
Filtering implementation of SearchContentHandler that by default passes all messages on to the next delegate in the chain. |
Constructors in org.biojava.bio.search with parameters of type SearchContentHandler | |
SearchContentFilter(SearchContentHandler delegate)
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