# CoRegFlux

## Documentation for package ‘CoRegFlux’ version 1.6.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

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