====================== Convex model balancing ====================== Matlab files for convex model balancing Main function: convex_model_balancing.m For an example, see 'demo_cmb_artificial_data.m' ------------ Input data ------------ Model Model structures must be given as SBtab or SBML files Kinetic data Kinetic data must be given as SBtab files o Metabolites must be annotated with KEGG Compound IDs o Reactions and Enzymes must be annotated with KEGG Reaction IDs Metabolic state data Metabolite, flux, and enzyme data must be given as SBtab files o Metabolites must be annotated with KEGG Compound IDs o Reactions and Enzymes must be annotated with KEGG Reaction IDs The columns containing the data can carry arbitrary names (which must be declared within matlab, for parsing the files) ------------ Result files ------------ kinetic_model.tsv SBtab - Metabolic network and kinetic constants (optionally: include kinetic rate law formulae) metabolic_states.tsv SBtab - Predicted metabolite concentrations, enzyme concentrations, Gibbs free energies, fluxes (for all states) report.txt Number of data points / of fitted variables (by category), and calculation time options.mat .mat Options results.mat .mat Results