bioinactivation: Simulation of Dynamic Microbial Inactivation

Prediction and adjustment to experimental data of microbial inactivation. Several models available in the literature are implemented.

AuthorAlberto Garre [aut, cre], Pablo S. Fernandez [aut], Jose A. Egea [aut]
Date of publication2016-09-18 13:02:59
MaintainerAlberto Garre <garre.alberto@gmail.com>
LicenseGPL-3
Version1.1.3

View on CRAN

Man pages

Bigelow_iso: Isothermal Bigelow's Model

build_temperature_interpolator: Continuum Interpolation of Discrete Temperatures Values

check_model_params: Correctness Check of Model Parameters

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

dPeleg_model: First Derivate of the Weibull-Peleg Model

dynamic_inactivation: Example Dynamic Inactivation of a Microorganis

fit_dynamic_inactivation: Fitting of Dynamic Inactivation Models

fit_inactivation_MCMC: Fitting of dynamic inactivation with MCMC

fit_isothermal_inactivation: Fit of Isothermal Experiments

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

is.FitInactivation: Test of FitInactivation object

is.FitInactivationMCMC: Test of FitInactivationMCMC object

is.IsoFitInactivation: Test of IsoFitInactivation object

isothermal_inactivation: Example Isothermal Inactivation of a Microorganis

is.PredInactivationMCMC: Test of PredInactivationMCMC object

is.SimulInactivation: Test of SimulInactivation object

laterosporus_dyna: Example Dynamic Inactivation of a Laterosporus

laterosporus_iso: Example Isothermal Inactivation of a Laterosporus

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: Prediction of Dynamic Inactivation

predict_inactivation_MCMC: Dynamic Prediction Intervals from a Monte Carlo Adjustment

sample_dynaFit: Random sample of the parameters of a FitInactivation object

sample_IsoFit: Random sample of the parameters of a IsoFitInactivation...

sample_MCMCfit: Random sample of the parameters of a FitInactivationMCMC...

summary.FitInactivation: Summary of a FitInactivation object

summary.FitInactivationMCMC: Summary of a FitInactivationMCMC object

summary.IsoFitInactivation: Summary of a IsoFitInactivation object

WeibullMafart_iso: Isothermal Weibull-Mafart Model

WeibullPeleg_iso: Isothermal Weibull-Peleg Model

Files in this package

bioinactivation
bioinactivation/inst
bioinactivation/inst/doc
bioinactivation/inst/doc/inactivation.Rmd
bioinactivation/inst/doc/inactivation.html
bioinactivation/inst/doc/inactivation.R
bioinactivation/tests
bioinactivation/tests/testthat.R
bioinactivation/NAMESPACE
bioinactivation/data
bioinactivation/data/dynamic_inactivation.rda
bioinactivation/data/laterosporus_dyna.rda
bioinactivation/data/laterosporus_iso.rda
bioinactivation/data/isothermal_inactivation.rda
bioinactivation/R
bioinactivation/R/temperature_interpolation.R bioinactivation/R/methods_s3_others.R bioinactivation/R/geeraerd_model.R bioinactivation/R/bigelow_model.R bioinactivation/R/weibull-mafart_model.R bioinactivation/R/function_mapping.R bioinactivation/R/methods_s3_plot.R bioinactivation/R/isothermal_models.R bioinactivation/R/predict_MCMC.R bioinactivation/R/calculate_cost.R bioinactivation/R/weibull-peleg_model.R bioinactivation/R/isothermal_fit.R bioinactivation/R/fit_MCMC.R bioinactivation/R/dynamic_fit.R bioinactivation/R/make_predictions.R bioinactivation/R/doc_examples.R
bioinactivation/vignettes
bioinactivation/vignettes/inactivation.Rmd
bioinactivation/README.md
bioinactivation/MD5
bioinactivation/build
bioinactivation/build/vignette.rds
bioinactivation/DESCRIPTION
bioinactivation/man
bioinactivation/man/predict_inactivation_MCMC.Rd bioinactivation/man/Bigelow_iso.Rd bioinactivation/man/is.PredInactivationMCMC.Rd bioinactivation/man/sample_dynaFit.Rd bioinactivation/man/check_model_params.Rd bioinactivation/man/get_isothermal_model_data.Rd bioinactivation/man/summary.FitInactivationMCMC.Rd bioinactivation/man/WeibullMafart_iso.Rd bioinactivation/man/isothermal_inactivation.Rd bioinactivation/man/dPeleg_model.Rd bioinactivation/man/predict_inactivation.Rd bioinactivation/man/fit_isothermal_inactivation.Rd bioinactivation/man/fit_inactivation_MCMC.Rd bioinactivation/man/sample_IsoFit.Rd bioinactivation/man/summary.IsoFitInactivation.Rd bioinactivation/man/build_temperature_interpolator.Rd bioinactivation/man/is.SimulInactivation.Rd bioinactivation/man/plot.SimulInactivation.Rd bioinactivation/man/plot.PredInactivationMCMC.Rd bioinactivation/man/laterosporus_iso.Rd bioinactivation/man/WeibullPeleg_iso.Rd bioinactivation/man/get_model_data.Rd bioinactivation/man/dBigelow_model.Rd bioinactivation/man/fit_dynamic_inactivation.Rd bioinactivation/man/sample_MCMCfit.Rd bioinactivation/man/dGeeraerd_model.Rd bioinactivation/man/plot.FitInactivationMCMC.Rd bioinactivation/man/is.FitInactivationMCMC.Rd bioinactivation/man/plot.IsoFitInactivation.Rd bioinactivation/man/summary.FitInactivation.Rd bioinactivation/man/laterosporus_dyna.Rd bioinactivation/man/is.FitInactivation.Rd bioinactivation/man/plot.FitInactivation.Rd bioinactivation/man/dMafart_model.Rd bioinactivation/man/get_prediction_cost.Rd bioinactivation/man/dynamic_inactivation.Rd bioinactivation/man/is.IsoFitInactivation.Rd

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