Module BioSeq

Implementations of Biopython-like Seq objects on top of BioSQL.

This allows retrival of items stored in a BioSQL database using a biopython-like Seq interface.

Classes

DBSeq

DBSeqRecord
BioSQL equivalent of the biopython SeqRecord object.

Functions

_retrieve_seq(adaptor, primary_id)

source code

_retrieve_dbxrefs(adaptor, primary_id)
Retrieve the database cross references for the sequence.

source code

_retrieve_features(adaptor, primary_id)

source code

_retrieve_annotations(adaptor, primary_id, taxon_id)

source code

_retrieve_qualifier_value(adaptor, primary_id)

source code

_retrieve_reference(adaptor, primary_id)

source code

_retrieve_taxon(adaptor, primary_id, taxon_id)

source code