pyenzyme.enzymeml.tools.enzymemlreader module#
- class pyenzyme.enzymeml.tools.enzymemlreader.ComplexFactory[source]#
Bases:
AbstractSpeciesFactory
Returns an un-initialized complex species object
- enzymeml_part: str = 'complex_dict'#
- get_species(**kwargs) AbstractSpecies [source]#
Return a new species object
- class pyenzyme.enzymeml.tools.enzymemlreader.EnzymeMLReader[source]#
Bases:
object
- readFromFile(path: str) EnzymeMLDocument [source]#
Reads EnzymeML document to an object layer EnzymeMLDocument class.
- Parameters
path (str) – Path to .omex container or folder destination for plain .xml
- class pyenzyme.enzymeml.tools.enzymemlreader.ProteinFactory[source]#
Bases:
AbstractSpeciesFactory
Returns an un-initialized protein species object
- enzymeml_part: str = 'protein_dict'#
- get_species(**kwargs) AbstractSpecies [source]#
Return a new species object
- class pyenzyme.enzymeml.tools.enzymemlreader.ReactantFactory[source]#
Bases:
AbstractSpeciesFactory
Returns an un-initialized reactant species object
- enzymeml_part: str = 'reactant_dict'#
- get_species(**kwargs) AbstractSpecies [source]#
Return a new species object
- pyenzyme.enzymeml.tools.enzymemlreader.species_factory_mapping(sbo_term: str) AbstractSpeciesFactory [source]#
Maps from SBOTerms to the appropriate species using a factory