Package: epidemics 0.4.0.9000

Rosalind Eggo

epidemics: Composable Epidemic Scenario Modelling

A library of compartmental epidemic models taken from the published literature, and classes to represent affected populations, public health response measures including non-pharmaceutical interventions on social contacts, non-pharmaceutical and pharmaceutical interventions that affect disease transmissibility, vaccination regimes, and disease seasonality, which can be combined to compose epidemic scenario models.

Authors:Pratik Gupte [aut, cph], Rosalind Eggo [aut, cph, cre], Edwin Van Leeuwen [aut, cph], Adam Kucharski [ctb, rev], Tim Taylor [ctb, rev], Banky Ahadzie [ctb], Alexis Robert [ctb], Hugo Gruson [rev], Joshua W. Lambert [rev], James M. Azam [rev], Alexis Robert [rev]

epidemics_0.4.0.9000.tar.gz
epidemics_0.4.0.9000.zip(r-4.7)epidemics_0.4.0.9000.zip(r-4.6)epidemics_0.4.0.9000.zip(r-4.5)
epidemics_0.4.0.9000.tgz(r-4.6-x86_64)epidemics_0.4.0.9000.tgz(r-4.6-arm64)epidemics_0.4.0.9000.tgz(r-4.5-x86_64)epidemics_0.4.0.9000.tgz(r-4.5-arm64)
epidemics_0.4.0.9000.tar.gz(r-4.7-arm64)epidemics_0.4.0.9000.tar.gz(r-4.7-x86_64)epidemics_0.4.0.9000.tar.gz(r-4.6-arm64)epidemics_0.4.0.9000.tar.gz(r-4.6-x86_64)
epidemics_0.4.0.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
epidemics/json (API)
NEWS

# Install 'epidemics' in R:
install.packages('epidemics', repos = c('https://epiverse-trace.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/epiverse-trace/epidemics/issues

Pkgdown/docs site:https://epiverse-trace.github.io

On CRAN:

Conda:

decision-supportepidemic-modellingepidemic-simulationsepidemiologyepiverseinfectious-disease-dynamicsmodel-librarynon-pharmaceutical-interventionsrcpprcppeigenscenario-analysisvaccination

7.63 score 18 stars 63 scripts 20 exports 16 dependencies

Last updated from:516555d78a. Checks:2 ERROR, 11 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64ERROR174
linux-devel-x86_64ERROR182
source / vignettesOK280
linux-release-arm64OK203
linux-release-x86_64OK189
macos-release-arm64OK130
macos-release-x86_64OK221
macos-oldrel-arm64OK132
macos-oldrel-x86_64OK426
windows-develOK159
windows-releaseOK152
windows-oldrelOK183
wasm-releaseOK140

Exports:as.interventionas.vaccinationcombine_populationsepidemic_peakepidemic_sizegravity_contactinterventionis_contacts_interventionis_interventionis_populationis_rate_interventionis_vaccinationmodel_defaultmodel_diphtheriamodel_ebolamodel_vacamolenew_infectionsoutcomes_avertedpopulationvaccination

Dependencies:backportsBHcheckmatecinterpolateclidata.tabledeSolvedigestgluejsonliteodinR6RcppRcppEigenringwithr

Design principles for epidemics

Rendered fromdesign-principles.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2025-07-17
Started: 2024-03-11

Getting started with epidemic scenario modelling components

Rendered fromepidemics.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2023-03-06

Getting started with modelling interventions targeting social contacts

Rendered frommodelling_interventions.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2023-04-14

Guide to developing epidemics features

Rendered fromdeveloper-walkthrough.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2025-07-17
Started: 2024-05-30

Modelling a diphtheria outbreak in a humanitarian camp setting

Rendered frommodel_diphtheria.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling in multiple populations

Rendered frommodelling_populations.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2025-04-29

Modelling intervention scenarios

Rendered frommodelling_scenarios.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling interventions that change infection parameters

Rendered frommodelling_rate_interventions.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling leaky vaccination and hospitalisation outcomes with Vacamole

Rendered frommodel_vacamole.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling overlapping and sequential interventions targeting social contacts

Rendered frommodelling_multiple_interventions.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling parameter uncertainty

Rendered frommodelling_param_uncertainty.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-05-07

Modelling responses to a stochastic Ebola virus epidemic

Rendered frommodel_ebola.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Modelling the effect of a vaccination campaign

Rendered frommodelling_vaccination.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2023-04-14

Modelling time-dependence and seasonality in transmission dynamics

Rendered frommodelling_time_dependence.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2024-03-14

Reducing parameters required for final size estimation

Rendered fromfinalsize_comparison.Rmdusingknitr::rmarkdownon Jun 05 2026.

Last update: 2026-06-05
Started: 2023-10-25