bioinactivation1.3.1 package

Mathematical Modelling of (Dynamic) Microbial Inactivation

Arrhenius_iso

Isothermal Arrhenius model

Bigelow_iso

Isothermal Bigelow's Model

build_temperature_interpolator

Continuum Interpolation of Discrete Temperatures Values

check_model_params

Correctness Check of Model Parameters

dArrhenius_model

First derivative of the Arrhenius model

dBigelow_model

First Derivate of the Linear Bigelow Model

dGeeraerd_model

First Derivate of Geeraerd's Model

dMafart_model

First Derivate of the Weibull-Mafart Model

dMetselaar_model

First Derivate of the Metselaar Model

dPeleg_model

First Derivate of the Weibull-Peleg Model

fit_dynamic_inactivation

Fitting of Dynamic Inactivation Models

fit_inactivation_MCMC

Fitting of dynamic inactivation with MCMC

fit_isothermal_inactivation

Fit of Isothermal Experiments

Geeraerd_iso

Isothermal Geeraerd Model

get_isothermal_model_data

Isothermal Model Data

get_model_data

Mapping of Simulation Model Functions

get_prediction_cost

Error of the Prediction of Microbial Inactivation

goodness_dyna

Goodness of fit for Dynamic fits

goodness_iso

Goodness of fit for Isothermal fits

goodness_MCMC

Goodness of fit for MCMC fits

goodness_of_fit

Goodness of fit for microbial inactivation models

is.FitInactivation

Test of FitInactivation object

is.FitInactivationMCMC

Test of FitInactivationMCMC object

is.IsoFitInactivation

Test of IsoFitInactivation object

is.PredInactivationMCMC

Test of PredInactivationMCMC object

is.SimulInactivation

Test of SimulInactivation object

Metselaar_iso

Isothermal Metselaar model

plot.FitInactivation

Plot of FitInactivation Object

plot.FitInactivationMCMC

Plot of FitInactivationMCMC Object

plot.IsoFitInactivation

Plot of IsoFitInactivation Object

plot.PredInactivationMCMC

Plot of PredInactivationMCMC Object

plot.SimulInactivation

Plot of SimulInactivation Object

predict_inactivation_MCMC

Dynamic Prediction Intervals from a Monte Carlo Adjustment

predict_inactivation

Prediction of Dynamic Inactivation

sample_dynaFit

Random sample of the parameters of a FitInactivation object

sample_IsoFit

Random sample of the parameters of a IsoFitInactivation object

sample_MCMCfit

Random sample of the parameters of a FitInactivationMCMC object

summary.FitInactivation

Summary of a FitInactivation object

summary.FitInactivationMCMC

Summary of a FitInactivationMCMC object

summary.IsoFitInactivation

Summary of a IsoFitInactivation object

time_to_logreduction

Time to reach X log reductions

WeibullMafart_iso

Isothermal Weibull-Mafart Model

WeibullPeleg_iso

Isothermal Weibull-Peleg Model

Functions for modelling microbial inactivation under isothermal or dynamic conditions. The calculations are based on several mathematical models broadly used by the scientific community and industry. Functions enable to make predictions for cases where the kinetic parameters are known. It also implements functions for parameter estimation for isothermal and dynamic conditions. The model fitting capabilities include an Adaptive Monte Carlo method for a Bayesian approach to parameter estimation.

  • Maintainer: Alberto Garre
  • License: GPL-3
  • Last published: 2025-11-03