Uses of Class
org.episteme.natural.biology.loaders.sbml.SBMLModel

Packages that use SBMLModel

Package	Description
org.episteme.natural.biology.loaders.sbml	Systems Biology Markup Language (SBML) loader for Episteme.

Uses of SBMLModel in org.episteme.natural.biology.loaders.sbml

Subclasses with type arguments of type SBMLModel in org.episteme.natural.biology.loaders.sbml

Modifier and Type	Class	Description
class	SBMLReader	Systems Biology Markup Language (SBML) Reader.

Methods in org.episteme.natural.biology.loaders.sbml that return SBMLModel

Modifier and Type	Method	Description
protected SBMLModel	SBMLReader.loadFromInputStream(InputStream is, String id)
protected SBMLModel	SBMLReader.loadFromSource(String resourceId)
SBMLModel	SBMLReader.read(File file)	Reads an SBML model from a file.
SBMLModel	SBMLReader.read(InputStream input)	Reads an SBML model from an input stream.

Methods in org.episteme.natural.biology.loaders.sbml that return types with arguments of type SBMLModel

Modifier and Type	Method	Description
Class<SBMLModel>	SBMLReader.getResourceType()

Methods in org.episteme.natural.biology.loaders.sbml with parameters of type SBMLModel

Modifier and Type	Method	Description
Map<String, List<Molecule>>	SBMLBridge.getCompartmentMoleculeMap(SBMLModel model)	Creates a compartment-to-species mapping for spatial modeling.
Map<String, List<String>>	SBMLBridge.getGeneProductAssociations(SBMLModel model)	Extracts gene-protein-reaction associations from FBC extension.
List<Molecule>	SBMLBridge.toMolecules(SBMLModel model)	Converts SBML species (metabolites) to Episteme Molecule objects.
List<BioChemicalReaction>	SBMLBridge.toReactions(SBMLModel model)	Converts SBML reactions to Episteme BioChemicalReaction objects.