socialmixr

0.6.0

Social Mixing Matrices for Infectious Disease Modelling

4packages depend

16.7Kdownloads / year

78.5%test coverage

13/13checks pass

Overview

About

Maintained by Sebastian FunkFirst published 2018-01-0817 releasesCRAN page ↗GitHub ↗

Methods for sampling contact matrices from diary data for use in infectious disease modelling, as discussed in Mossong et al. (2008) doi:10.1371/journal.pmed.0050074.

Install

R (CRAN)pak (dev)Ubuntu (r2u)openSUSE (OBS)

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("epiforecasts/socialmixr")

Development version from epiforecasts/socialmixr. Installs pak first if it is not already available.

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-socialmixr

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

# 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-socialmixr

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

Health

CRAN checks

13OK

Slowest check: 3.7 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.66

78.5%

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 · 254 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 88%
Documented parameters: 93%
Return-value docs: 96%
References docs: 0%

Downloads

16.7K

CRAN downloads in the past year

Rank #3,569 · ~46/day · ~1.4K/mo

Releases R versions

Daily download trend is not available in this view yet.

91930 days

3.1K90 days

16.7K1 year

Compare downloads with other packages →

Also on146 r2u24 autocran49 c2d4u

Repository

GitHub ↗ epiforecasts/socialmixr

44Stars

15Forks

15Open issues

1Open PRs

9Releases

687Commits

16Contributors

rr-package

687 commits · Last activity 2026-07-14 · 0% stars, 30d

Stars over time

2024-07-19 · 382026-07-07 · 44

Repository practices

Upstream repositoryBeta

10 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/epiforecasts/socialmixr on 2026-07-19.

Continuous integration (2)

GitHub ActionsTravis CI

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Automation and maintenance (1)

Dependabot

Show all practices

Lint, format, editor (4)

lintrAirVS CodeRStudio project

Coverage (1)

Codecov

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

25 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (17)

checkmate countrycode curl data.tablegrDeviceshttr jsonlite lifecycle lubridate memoise purrr oai wpp2017 xml2 cli rlangmethods

LinkingTo (0)

none

Suggests (10)

contactsurveys ggplot2 here knitr quarto reshape2 rmarkdown roxyglobals testthat withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

4direct

0indirect

multigroup.vaccine contactsurveys finalsize o2geosocial

Code & Tests

People & History

People (12)

Maintainer (1)

Sebastian Funk

Author, Maintainer

Authors (4)

Sebastian Funk

Author, Maintainer

Hugo Gruson

Author · added in 0.3.0

Nicholas Tierney

Author · added in 0.5.1

Lander Willem

Author · added in 0.2.0

Contributors (7)

Maria Bekker-Nielsen Dunbar

Contributor · added in 0.1.7

Lloyd Chapman

Contributor · added in 0.5.0

Sam Clifford

Contributor · added in 0.1.7

Niel Hens

Contributor · added in 0.2.0

Christopher Jarvis

Contributor · added in 0.1.7

Carl A. B. Pearson

Contributor · added in 0.1.7

Alexis Robert

Contributor · added in 0.1.7

Other (1)

Pietro Coletti

col, dtm · added in 0.2.0

Package Timeline

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

0.6.0Latest
2026-04-29 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
0.5.1
2026-02-04 · diff ↗
0.5.0
2026-01-19 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.4.0
2024-10-18 · diff ↗
R
R 4.4.0 released · 2024-04-24
0.3.2
2024-04-18 · diff ↗
0.3.1
2023-10-26 · diff ↗
0.3.0
2023-10-18 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.2.0
2022-10-27 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.1.8
2020-11-14 · diff ↗
0.1.7
2020-08-06 · diff ↗

Show 11 earlier events

R
R 4.0.0 released · 2020-04-24
0.1.6
2020-01-10 · diff ↗
0.1.5
2019-09-24 · diff ↗
0.1.4
2019-07-24 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.1.3
2018-08-10 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.1.2
2018-02-22 · diff ↗
0.1.1
2018-01-15 · diff ↗
0.1.0
2018-01-08
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-01-08
Total releases: 17 / 8 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Bundled data: 364 KB / 1 file
Download size: 553 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Epidemiology

Report a problem with this page →