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bioinactivation (version 1.3.0)

Mathematical Modelling of (Dynamic) Microbial Inactivation

Description

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.

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Version

Install

install.packages('bioinactivation')

Monthly Downloads

521

Version

1.3.0

License

GPL-3

Maintainer

Alberto Garre

Last Published

April 6th, 2025

Functions in bioinactivation (1.3.0)

dMafart_model

First Derivate of the Weibull-Mafart Model
dPeleg_model

First Derivate of the Weibull-Peleg Model
dynamic_inactivation

Example Dynamic Inactivation of a Microorganis
fit_isothermal_inactivation

Fit of Isothermal Experiments
dMetselaar_model

First Derivate of the Metselaar Model
goodness_dyna

Goodness of fit for Dynamic fits
is.PredInactivationMCMC

Test of PredInactivationMCMC object
fit_dynamic_inactivation

Fitting of Dynamic Inactivation Models
is.FitInactivation

Test of FitInactivation object
plot.FitInactivation

Plot of FitInactivation Object
goodness_of_fit

Goodness of fit for microbial inactivation models
laterosporus_iso

Example Isothermal Inactivation of a Laterosporus
plot.IsoFitInactivation

Plot of IsoFitInactivation Object
plot.FitInactivationMCMC

Plot of FitInactivationMCMC Object
is.SimulInactivation

Test of SimulInactivation object
get_prediction_cost

Error of the Prediction of Microbial Inactivation
goodness_iso

Goodness of fit for Isothermal fits
goodness_MCMC

Goodness of fit for MCMC fits
predict_inactivation

Prediction of Dynamic Inactivation
predict_inactivation_MCMC

Dynamic Prediction Intervals from a Monte Carlo Adjustment
summary.FitInactivation

Summary of a FitInactivation object
sample_dynaFit

Random sample of the parameters of a FitInactivation object
summary.FitInactivationMCMC

Summary of a FitInactivationMCMC object
summary.IsoFitInactivation

Summary of a IsoFitInactivation object
is.FitInactivationMCMC

Test of FitInactivationMCMC object
is.IsoFitInactivation

Test of IsoFitInactivation object
laterosporus_dyna

Example Dynamic Inactivation of a Laterosporus
time_to_logreduction

Time to reach X log reductions
plot.SimulInactivation

Plot of SimulInactivation Object
sample_MCMCfit

Random sample of the parameters of a FitInactivationMCMC object
plot.PredInactivationMCMC

Plot of PredInactivationMCMC Object
sample_IsoFit

Random sample of the parameters of a IsoFitInactivation object
isothermal_inactivation

Example Isothermal Inactivation of a Microorganis
Geeraerd_iso

Isothermal Geeraerd Model
dBigelow_model

First Derivate of the Linear Bigelow Model
dArrhenius_model

First derivative of the Arrhenius model
build_temperature_interpolator

Continuum Interpolation of Discrete Temperatures Values
WeibullPeleg_iso

Isothermal Weibull-Peleg Model
check_model_params

Correctness Check of Model Parameters
Metselaar_iso

Isothermal Metselaar model
Arrhenius_iso

Isothermal Arrhenius model
WeibullMafart_iso

Isothermal Weibull-Mafart Model
Bigelow_iso

Isothermal Bigelow's Model
get_isothermal_model_data

Isothermal Model Data
fit_inactivation_MCMC

Fitting of dynamic inactivation with MCMC
get_model_data

Mapping of Simulation Model Functions
dGeeraerd_model

First Derivate of Geeraerd's Model