Uses of Interface
org.biojavax.bio.db.BioEntryDB

Packages that use BioEntryDB

Package	Description
org.biojavax.bio.db	Interactions between biojavax objects and a DB.
org.biojavax.bio.db.biosql	Interface between biojava and biosql databases
org.biojavax.bio.db.ncbi	Interfaces to NCBI data.

Uses of BioEntryDB in org.biojavax.bio.db

Subinterfaces of BioEntryDB in org.biojavax.bio.db

Modifier and Type	Interface and Description
interface	RichSequenceDB A database of RichSequences with accessible keys and iterators over all sequences.

Classes in org.biojavax.bio.db that implement BioEntryDB

Modifier and Type	Class and Description
class	AbstractBioEntryDB An abstract implementation of BioEntryDB that provides the getBioEntryIterator method.
class	AbstractRichSequenceDB An abstract implementation of RichSequenceDB that provides the getRichSequenceIterator method.
class	HashBioEntryDB An implementation of RichSequenceDB that uses an underlying HashMap to store the RichSequence objects.
class	HashRichSequenceDB An implementation of RichSequenceDB that uses an underlying HashMap to store the RichSequence objects.

Methods in org.biojavax.bio.db that return BioEntryDB

Modifier and Type	Method and Description
BioEntryDB	HashBioEntryDB.getBioEntrys(Set ids)
BioEntryDB	BioEntryDBLite.getBioEntrys(Set ids) Retrieve multiple BioEntry by their ids.
BioEntryDB	AbstractRichSequenceDB.getBioEntrys(Set ids)
BioEntryDB	HashBioEntryDB.getBioEntrys(Set ids, BioEntryDB db)
BioEntryDB	BioEntryDBLite.getBioEntrys(Set ids, BioEntryDB db) Retrieve multiple BioEntry into a specific sequence database.
BioEntryDB	AbstractRichSequenceDB.getBioEntrys(Set ids, BioEntryDB db)

Methods in org.biojavax.bio.db with parameters of type BioEntryDB

Modifier and Type	Method and Description
BioEntryDB	HashBioEntryDB.getBioEntrys(Set ids, BioEntryDB db)
BioEntryDB	BioEntryDBLite.getBioEntrys(Set ids, BioEntryDB db) Retrieve multiple BioEntry into a specific sequence database.
BioEntryDB	AbstractRichSequenceDB.getBioEntrys(Set ids, BioEntryDB db)

Uses of BioEntryDB in org.biojavax.bio.db.biosql

Classes in org.biojavax.bio.db.biosql that implement BioEntryDB

Modifier and Type	Class and Description
class	BioSQLBioEntryDB
class	BioSQLRichSequenceDB

Methods in org.biojavax.bio.db.biosql that return BioEntryDB

Modifier and Type	Method and Description
BioEntryDB	BioSQLBioEntryDB.getBioEntrys(Set ids)
BioEntryDB	BioSQLBioEntryDB.getBioEntrys(Set ids, BioEntryDB db)

Methods in org.biojavax.bio.db.biosql with parameters of type BioEntryDB

Modifier and Type	Method and Description
BioEntryDB	BioSQLBioEntryDB.getBioEntrys(Set ids, BioEntryDB db)

Uses of BioEntryDB in org.biojavax.bio.db.ncbi

Classes in org.biojavax.bio.db.ncbi that implement BioEntryDB

Modifier and Type	Class and Description
class	GenbankRichSequenceDB This class contains functions accessing DNA sequences in Genbank format.
class	GenpeptRichSequenceDB This class contains functions accessing Peptide sequences in Genpept format.