adjust_constraints_to_observed_rates | Adjust the constraint of the model to observed rates |
aliases_SC | aliases_SC data |
build_exchange_met | Build the exchange metabolite data.frame |
coregflux_static | Update the model using the provided gene regulatory network and expression |
get_biomass_flux_position | Get biomass flux position |
get_fba_fluxes_from_observations | Get fluxes balance from an observed growth rate |
get_fva_intervals_from_observations | Get intervals of flux variability (FVA) from an observed growth rate |
get_linear_model | Train a linear model |
get_metabolites_exchange_fluxes | Get metabolites exchange fluxes |
iMM904 | iMM904 |
ODCurveToFluxCurves | ODCurveToFluxCurves |
ODCurveToMetabolicGeneCurves | ODCurveToMetabolicGeneCurves |
ODcurveToMetCurve | ODcurveToMetCurve data |
ODtoflux | ODtoflux data |
ODToFluxBounds | ODToFluxBounds |
PredictedGeneState | PredictedGeneState data |
predict_linear_model_influence | Predict the gene expression level based on condition-specific influence |
SC_experiment_influence | SC_experiment_influence data |
SC_EXP_DATA | SC_EXP_DATA data |
SC_GRN_1 | SC_GRN_1 data |
SC_Test_data | SC_Test_data data |
Simulation | Simulation using Dynamic Flux balance analysis over time as in varma |
Simulation_Step | Single simulation step |
update_fluxes_constraints_geneKOOV | Update the fluxes constraints to simulate gene KO or overexpression |
update_fluxes_constraints_influence | Update the fluxes constraints to simulate TF KO or overexpression |
update_uptake_fluxes_constraints_metabolites | Update the fluxes constraints given the metabolite concentrations |
visFluxCurves | Visualize Fluxes Curves |
visMetabolicGeneCurves | Visualize Metabolic Gene Curves |