get_fba_fluxes_from_observations: Get fluxes balance from an observed growth rate

In CoRegFlux: CoRegFlux

Description

Get fluxes balance from an observed growth rate

Usage

get_fba_fluxes_from_observations(model, observed_growth_rate,
  metabolites_rates = NULL,
  biomass_flux_index = get_biomass_flux_position(model),
  backward_fluxes = "_b", forward_fluxes = "_f")

Arguments

model	a genome-scale metabolic model of class modelorg
observed_growth_rate	a numerical value for the observed growth rate
metabolites_rates	Optional, a data.frame consisting of the name of the metabolites, their concentrations and rates in mmol/gDW/h to adjust the model uptake rates. The column name must be "name", "concentrations","rates"
biomass_flux_index	Optional. Index of the biomass flux as returned by get_biomass_flux_position()
backward_fluxes	Optional, only relevant for irreversible model
forward_fluxes	Optional, only relevant for irreversible model

Value

Return fluxes values compatible with the observed growth rate through flux balance analysis

Examples

data("iMM904")
metabolites_rates<-data.frame(name=c("D-Glucose","Glycerol"),
                         concentrations=c(16,0),rates=c(-2.81,-8.01))

FluxesFromObs<-get_fba_fluxes_from_observations(iMM904,0.205,
metabolites_rates = metabolites_rates)

CoRegFlux documentation built on Nov. 8, 2020, 5:21 p.m.