Estimation of extracellular fluxes and growth rate
Switch branches/tags
Nothing to show
Clone or download
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Permalink
Failed to load latest commit information.
Example
LICENSE
README.md
Tutorial.pdf
nlsic.R
physio_fit.R

README.md

PhysioFit

PhysioFit is a scientific tool designed to i) quantify exchange (production and consumption) fluxes and ii) cell growth rate during (batch) cultivations of microorganisms. Fluxes are estimated from time-course measurements of extracellular metabolites and biomass concentrations. An important assumption is that cells are in metabolic (pseudo) steady-state. PhysioFit includes the following features:

  • Calculation of growth rate and extracellular (uptake and production) fluxes.
  • Lag before growth (e.g. due to adaptation to a novel environment) can be taken into account and estimated.
  • Non-enzymatic degradation of some carbon sources (e.g. DHA or glutamine) can be estimated and taken into account when calculating exchange fluxes.
  • Sensitivity analyses are performed to estimate the precision of the calculated fluxes.
  • Evaluation of the goodness of fit and visual inspection of the fitted curves.