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Bio-DB-SeqFeature-1.7.4
River stage zero No dependents
++

Changes for version 1.7.4 - 2020-01-08

  • The prior release required both DBD::Pg and DBD::SQLite; we now skip these.
  • We now explicitly require Bio::DB::GFF::Typename; tests depend on it and the dynamic loading used (which caused issue #1) now doesn't make sense.

Documentation

bp_seqfeature_load.pl
Load GFF into a SeqFeature database

Modules

Bio::DB::SeqFeature
Normalized feature for use with Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::NormalizedFeature
Normalized feature for use with Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::NormalizedFeatureI
Interface for normalized features
Bio::DB::SeqFeature::NormalizedTableFeatureI
Interface for normalized features whose hierarchy is stored in a table
Bio::DB::SeqFeature::Segment
Location-based access to genome annotation data
Bio::DB::SeqFeature::Store
Storage and retrieval of sequence annotation data
Bio::DB::SeqFeature::Store::DBI::Iterator
utility methods for creating and iterating over SeqFeature records
Bio::DB::SeqFeature::Store::DBI::Pg
PostgreSQL implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::DBI::SQLite
SQLite implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::DBI::mysql
Mysql implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::FeatureFileLoader
feature file loader for Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::GFF2Loader
GFF2 file loader for Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::GFF3Loader
GFF3 file loader for Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::LoadHelper
Internal utility for Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::Loader
Loader
Bio::DB::SeqFeature::Store::bdb
fetch and store objects from a BerkeleyDB
Bio::DB::SeqFeature::Store::berkeleydb
Storage and retrieval of sequence annotation data in Berkeleydb files
Bio::DB::SeqFeature::Store::berkeleydb3
Storage and retrieval of sequence annotation data in Berkeleydb files
Bio::DB::SeqFeature::Store::memory
In-memory implementation of Bio::DB::SeqFeature::Store

Provides

Bio::DB::Fasta::Subdir
in lib/Bio/DB/SeqFeature/Store/berkeleydb.pm
Bio::DB::SeqFeature::Store::FeatureIterator
in lib/Bio/DB/SeqFeature/Store.pm
Bio::DB::SeqFeature::Store::berkeleydb::Iterator
in lib/Bio/DB/SeqFeature/Store/berkeleydb.pm
Bio::DB::SeqFeature::Store::memory::Iterator
in lib/Bio/DB/SeqFeature/Store/memory.pm

Other files