org.biojavax.bio.db.biosql (BioJava-1.5-beta API)
Keywords: org.biojavax.bio.db.biosql package

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

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.

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