Search results for "distribution:Bio-DB-SeqFeature Bio::DB::SeqFeature::Segment"
Bio::DB::SeqFeature::Segment - Location-based access to genome annotation data
The segment object simplifies access to Bio::DB::SeqFeature store by acting as a placeholder for a region of the genome. You can replace this statement: @features = $db->features(-seq_id=>'Chr1', -start=>5000, -end=>6000, -types=>['mRNA','match','rep...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature - Normalized feature for use with Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature object is the default SeqFeature class stored in Bio::DB::SeqFeature databases. It implements both the Bio::DB::SeqFeature::NormalizedFeatureI and Bio::DB::SeqFeature::NormalizedTableFeatureI interfaces, which means that its s...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::DBI::Pg - PostgreSQL implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::Pg is the Pg adaptor for Bio::DB::SeqFeature::Store. You will not create it directly, but instead use Bio::DB::SeqFeature::Store->new() to do so. See Bio::DB::SeqFeature::Store for complete usage instructions. Using the Pg...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::LoadHelper - Internal utility for Bio::DB::SeqFeature::Store
For internal use only...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::DBI::mysql - Mysql implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::mysql is the Mysql adaptor for Bio::DB::SeqFeature::Store. You will not create it directly, but instead use Bio::DB::SeqFeature::Store->new() to do so. See Bio::DB::SeqFeature::Store for complete usage instructions. Using ...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::DBI::SQLite - SQLite implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::SQLite is the SQLite adaptor for Bio::DB::SeqFeature::Store. You will not create it directly, but instead use Bio::DB::SeqFeature::Store->new() to do so. See Bio::DB::SeqFeature::Store for complete usage instructions. Usin...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::memory - In-memory implementation of Bio::DB::SeqFeature::Store
Bio::DB::SeqFeature::Store::memory is the in-memory adaptor for Bio::DB::SeqFeature::Store. You will not create it directly, but instead use Bio::DB::SeqFeature::Store->new() to do so. See Bio::DB::SeqFeature::Store for complete usage instructions. U...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::NormalizedFeature - Normalized feature for use with Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature::NormalizedFeature object is an alternative representation of SeqFeatures for use with Bio::DB::SeqFeature::Store database system. It is identical to Bio::DB::SeqFeature, except that instead of storing feature/subfeature relat...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::GFF3Loader - GFF3 file loader for Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature::Store::GFF3Loader object parsers GFF3-format sequence annotation files and loads Bio::DB::SeqFeature::Store databases. For certain combinations of SeqFeature classes and SeqFeature::Store databases it features a "fast load" m...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::GFF2Loader - GFF2 file loader for Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature::Store::GFF2Loader object parsers GFF2-format sequence annotation files and loads Bio::DB::SeqFeature::Store databases. For certain combinations of SeqFeature classes and SeqFeature::Store databases it features a "fast load" m...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::FeatureFileLoader - feature file loader for Bio::DB::SeqFeature::Store
The Bio::DB::SeqFeature::Store::FeatureFileLoader object parsers FeatureFile-format sequence annotation files and loads Bio::DB::SeqFeature::Store databases. For certain combinations of SeqFeature classes and SeqFeature::Store databases it features a...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store - Storage and retrieval of sequence annotation data
Bio::DB::SeqFeature::Store implements the Bio::SeqFeature::CollectionI interface to allow you to persistently store Bio::SeqFeatureI objects in a database and to later to retrieve them by a variety of searches. This module is similar to the older Bio...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::NormalizedFeatureI - Interface for normalized features
This is an extremely simple interface that contains a single method, subfeatures_are_normalized(). This method returns a true value. Bio::DB::SeqFeature::Store feature classes will inherit this interface to flag that they are able to store subfeature...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::Loader - Loader
This is the base class for Bio::DB::SeqFeature::Loader::GFF3Loader, Bio::DB::SeqFeature::Loader::GFFLoader, and Bio::DB::SeqFeature::FeatureFileLoader. Please see the manual pages for these modules....
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::berkeleydb3 - Storage and retrieval of sequence annotation data in Berkeleydb files
This is a faster version of the berkeleydb storage adaptor for Bio::DB::SeqFeature::Store. It is used automatically when you create a new database with the original berkeleydb adaptor. When opening a database created under the original adaptor, the o...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::Store::berkeleydb - Storage and retrieval of sequence annotation data in Berkeleydb files
Bio::DB::SeqFeature::Store::berkeleydb is the Berkeleydb adaptor for Bio::DB::SeqFeature::Store. You will not create it directly, but instead use Bio::DB::SeqFeature::Store->new() to do so. See Bio::DB::SeqFeature::Store for complete usage instructio...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC
Bio::DB::SeqFeature::NormalizedTableFeatureI - Interface for normalized features whose hierarchy is stored in a table
This is an extremely simple interface that contains a single method, subfeatures_are_stored_in_a_table(). This method returns a true value. Bio::DB::SeqFeature::Store feature classes will inherit this interface to flag that in addition to being able ...
CJFIELDS/Bio-DB-SeqFeature-1.7.4 - 09 Jan 2020 04:03:49 UTC