bioinactivation

1.3.1

Mathematical Modelling of (Dynamic) Microbial Inactivation

0packages depend

4.1Kdownloads / year

22.2%test coverage

13/13checks pass

Overview

About

Maintained by Alberto GarreFirst published 2015-12-1111 releasesCRAN page ↗

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.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("bioinactivation", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-bioinactivation

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-bioinactivation

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-bioinactivation

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 2.8 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

22.2%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 126 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 86%
References docs: 0%

Downloads

4.1K

CRAN downloads in the past year

Rank #10,709 · ~11/day · ~343/mo

Releases R versions

Daily download trend is not available in this view yet.

28030 days

97090 days

4.1K1 year

Compare downloads with other packages →

Also on527 r2u52 autocran43 c2d4u

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (10)

dplyr deSolve FME lazyeval ggplot2MASSgraphics (>= 3.1.3)statsrlang purrr

LinkingTo (0)

none

Suggests (4)

knitr testthat rmarkdown tidyr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Alberto Garre

Author, Maintainer · added in 1.1.1

Authors (3)

Alberto Garre

Author, Maintainer · added in 1.1.1

Jose A. Egea

Author · added in 1.1.1

Pablo S. Fernandez

Author · added in 1.1.1

Listed in earlier versions (3)

Jose A. Egea Larrosa

no longer listed · 1.0.1

Pablo S. Fernandez Egea

no longer listed · 1.0.1

Alberto Garre Perez

no longer listed · 1.0.1

Package Timeline

11 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.3.1Latest
2025-11-03 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.3.0
2025-04-06 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.2.3
2019-08-01 · diff ↗
1.2.2
2019-06-05 · diff ↗
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
1.2.1
2017-12-15 · diff ↗
1.2.0
2017-11-23 · diff ↗
R
R 3.4.0 released · 2017-04-21

Show 7 earlier events

1.1.5
2017-01-29 · diff ↗
1.1.3
2016-09-18 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.1.2
2016-03-21 · diff ↗
1.1.1
2016-02-04 · diff ↗
1.0.1
2015-12-11
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-12-11
Total releases: 11 / 11 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10
Bundled data: 2.5 KB / 4 files
Download size: 190 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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