Search results for "distribution:Bio-DB-SeqFeature Bio::DB::SeqFeature::Store::bdb"
Bio::DB::SeqFeature::Store::bdb - fetch and store objects from a BerkeleyDB
This is a partial implementation -- just enough has been implemented so that we can fetch and store objects. It is used as a temporary failsafe store by the GFF3Loader module...
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::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::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::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::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::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