8.1.1.5.1.6. skimpy.mechanisms.generalized_elementary_kinetics¶
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8.1.1.5.1.6.1. Module Contents¶
8.1.1.5.1.6.1.1. Functions¶
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Creates a reversible N-M GeneralizedElementaryKinetics class |
- skimpy.make_generalized_elementary_kinetics(stoichiometry, generalized_reactants)¶
Creates a reversible N-M GeneralizedElementaryKinetics class
GeneralizedElementaryKinetics iplementing the kinetic scheme to account for non ideal effects in large scale kinetic model:
Weilandt, Daniel R., and Vassily Hatzimanikatis. “Particle-based simulation reveals macromolecular crowding effects on the Michaelis-Menten mechanism.” Biophysical Journal (2019).
:param stoichiometry is a list of the reaction stoichioemtry :param generalized_reactants is a list of reactants that contribute in a powerlaw form:
- v = v_0 * exp(beta_forward)
… * (x_1/x_1_0)^(alpha_f_x_1 ) … * (x_n/x_n_0)^(alpha_f_x_n )
with v_0 beeing the reversible Massaction flux