Documentation

Bulk-load a Bio::DB::GFF database from GFF files.
Fast-load a Bio::DB::GFF database from GFF files.
Load a Bio::DB::GFF database from GENBANK files.
Generate a histogram of Bio::DB::GFF features
Load a Bio::DB::GFF database from GFF files.
Get/set Bio::DB::GFF meta-data

Modules

Storage and retrieval of sequence annotation data
Bio::DB::GFF database adaptor for in-memory databases
iterator for Bio::DB::GFF::Adaptor::berkeleydb
Cache BioFetch objects in a Bio::DB::GFF database
Cache BioFetch objects in a Bio::DB::GFF database
Database adaptor for DBI (SQL) databases
Cache for database handles
iterator for Bio::DB::GFF::Adaptor::dbi
Database adaptor for a specific mysql schema
Database adaptor for an integraded CMap/GBrowse mysql schema
Deprecated database adaptor
Database adaptor for a specific oracle schema
Database adaptor for a specific postgres schema
Database adaptor for a specific postgres schema with a TSearch2 implementation
Bio::DB::GFF database adaptor for in-memory databases
utility methods for serializing and deserializing GFF features
iterator for Bio::DB::GFF::Adaptor::memory
Aggregate GFF groups into composite features
The Coding Region Aggregator
Sequence Ontology Geene
An aggregator for orf regions
Sequence Ontology Transcript
Sequence Ontology Transcript
Transcript aggregator
UCSC acembly aggregator
UCSC ensGene aggregator
UCSC genscan aggregator
UCSC refGene aggregator
UCSC sanger22 aggregator
UCSC sanger22pseudo aggregator
UCSC softberry aggregator
UCSC twinscan aggregator
UCSC UniGene aggregator
The name of a feature
A relative segment identified by a feature type
A segment of DNA that is homologous to another
Sequence segment with relative coordinate support
Simple DNA segment object
The name of a feature type

Provides

in lib/Bio/DB/GFF/Adaptor/dbi/caching_handle.pm
in lib/Bio/DB/GFF.pm
in lib/Bio/DB/GFF.pm
in lib/Bio/DB/GFF/Adaptor/berkeleydb.pm