## Package org.biojavax.bio.db.biosql

Interface between biojava and biosql databases

See:
Description

Interface Summary
BioSQLFeatureFilter: A filter for accepting or rejecting a feature.

Class Summary
BioSQLAcceptAllFilter: The class that accepts all features.
BioSQLAcceptNoneFilter: The class that accepts no features.
BioSQLBioEntryDB
BioSQLCrossReferenceResolver: A simple implementation of CrossReferenceResolver
BioSQLFeatureFilter.And: A filter that returns all features accepted by both child filter.
BioSQLFeatureFilter.ByName: Construct one of these to filter features by display name.
BioSQLFeatureFilter.ByNote: A filter that returns all features that have the given note, and the value and rank is checked as well.
BioSQLFeatureFilter.ByNoteTermOnly: A filter that returns all features that have a note with the given term.
BioSQLFeatureFilter.ByRank: Construct one of these to filter features by rank.
BioSQLFeatureFilter.BySequenceName: Accept features that reside on a sequence with a particular name.
BioSQLFeatureFilter.BySourceTerm: Construct one of these to filter features by source.
BioSQLFeatureFilter.BySourceTermName: Construct one of these to filter features by source (name only - parent ontology is ignored).
BioSQLFeatureFilter.ByStrand: A filter that returns all features having locations on a given strand.
BioSQLFeatureFilter.ByTypeTerm: Construct one of these to filter features by type.
BioSQLFeatureFilter.ByTypeTermName: Construct one of these to filter features by type (name only - parent ontology is ignored).
BioSQLFeatureFilter.ContainedByRichLocation: A filter that returns all features contained within a location.
BioSQLFeatureFilter.HibernateFeatureFilter: A filter for Hibernate-BioSQL filters to extend.
BioSQLFeatureFilter.Not: A filter that returns all features not accepted by a child filter.
BioSQLFeatureFilter.Or: A filter that returns all features accepted by at least one child filter.
BioSQLFeatureFilter.OverlapsRichLocation: A filter that returns all features overlapping a location.
BioSQLFeatureFilter.Tools: A class representing some useful stuff you can do with BioSQLFeatureFilters, for instance converting plain FeatureFilters into a their BioSQLFeatureFilter equivalents (where possible).
BioSQLRichObjectBuilder: Takes requests for RichObjects and sees if it can load them from a Hibernate database.
BioSQLRichSequenceDB
BioSQLRichSequenceHandler: A handler which loads sequence data from a BioSQL database, caching it where possible.

## Package org.biojavax.bio.db.biosql Description

Interface between biojava and biosql databases