src.model_balancing.io

A module for I/O operations related to model balancing.

Module Contents

src.model_balancing.io.standardize_input_matrix(x: List[float] | numpy.array, unit: str) → src.model_balancing.Q_

Create a 2D Numpy array of Quantities.

If the input is only 1D, make sure it becomes a 2D array with a single column. This is important because we always assume that all our inputs are 2D.

src.model_balancing.io.to_state_sbtab(v, c, e, delta_g, metabolite_names, reaction_names, state_names) → sbtab.SBtab.SBtabDocument

Create a state SBtab.

The state SBtab contains the values of the state-dependent variables, i.e. flux, concentrations of metabolites, concentrations of enzymes, and the ΔG’ values.

src.model_balancing.io.to_model_sbtab(kcatf, kcatr, Keq, Km, Ka, Ki, S, A_act, A_inh, metabolite_names, reaction_names, state_names) → sbtab.SBtab.SBtabDocument

Create a model SBtab.

The model SBtab contains the values of the state-independent variables, i.e. kcatf, kcatr, Km, Ka, and Ki.