2.1.1.3.1.6. enkie.estimators.kinetics_estimator_interface

Interface for an estimator of kinetic parameters.

2.1.1.3.1.6.1. Module Contents

class enkie.estimators.kinetics_estimator_interface.KineticsEstimatorInterface[source]

Interface for a class implementing estimation of kinetic parameters

abstract get_parameters(reactions: List[enkie.miriam_reaction.MiriamReaction], enzymes: List[enkie.enzyme.Enzyme], parameter_types: List[enkie.estimators.kinetic_parameter_types.KineticParameterType], substrates: List[enkie.miriam_metabolite.MiriamMetabolite]) → Tuple[numpy.ndarray, numpy.ndarray][source]

Estimate kinetic parameter values for the given reaction-enzyme pairs.

Parameters:

  • reactions (List[MiriamReaction]) – The reactions to predict parameters for.

  • enzymes (List[Enzyme]) – The enzymes associated with the reactions.

  • parameter_types (List[KineticParameterType]) – The type of the parameters to predict.

  • substrates (List[MiriamMetabolite]) – For KM parameters, the metabolite to predict the KM for. This is ignored for kcat.

Returns:

The vector of mean parameter ln-values and the covariance of the uncertainty of the estimated parameter ln-values.

Return type:

Tuple[np.ndarray, np.ndarray]