## Uses of Package
org.biojava.bio.search

Packages that use org.biojava.bio.search
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.

Classes in org.biojava.bio.search used by org.biojava.bio.program.sax
SearchContentHandler `SearchContentHandler` is a notification interface for objects which listen to search stream parsers.

Classes in org.biojava.bio.search used by org.biojava.bio.program.ssbind
SearchBuilder The `SearchBuilder` interface is to be used by objects which accumulate state via a `SearchContentHandler` and then construct a `SeqSimilaritySearchResult` object.
SearchContentHandler `SearchContentHandler` is a notification interface for objects which listen to search stream parsers.
SeqSimilaritySearchResult Objects of this type represent one particular result of a sequence similarity search.

Classes in org.biojava.bio.search used by org.biojava.bio.search
SearchContentHandler `SearchContentHandler` is a notification interface for objects which listen to search stream parsers.
SeqSimilaritySearchHit Objects of this type represent one particular hit (sequence and associated information) from a sequence similarity search.
SeqSimilaritySearchHit.ByScoreComparator `ByScoreComparator` compares `SeqSimilaritySearchHit`s by their score.
SeqSimilaritySearchHit.BySubHitCountComparator `BySubHitCountComparator` compares `SeqSimilaritySearchHit`s by their number of sub-hits.
SeqSimilaritySearchResult Objects of this type represent one particular result of a sequence similarity search.
SeqSimilaritySearchSubHit Objects of this type represent one particular sub-hit (one concrete sequence stretch within a sequence and associated information) from a sequence similarity search hit.
SeqSimilaritySearchSubHit.ByScoreComparator `ByScoreComparator` compares `SeqSimilaritySearchSubHit`s by their score.
SeqSimilaritySearchSubHit.BySubjectStartComparator `BySubjectStartComparator` compares `SeqSimilaritySearchSubHit`s by their start position on the subject sequence.