R Observatory: Metrics for odin version 1.2.7

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

odin

1.2.7Package record

ODE Generation and Integration

1packages depend

13.9Kdownloads / year

51.2%test coverage

13/13flavors OK

Overview

About

Maintained by Rich FitzJohnCRAN page ↗GitHub ↗Issues ↗

Generate systems of ordinary differential equations (ODE) and integrate them, using a domain specific language (DSL). The DSL uses R's syntax, but compiles to C in order to efficiently solve the system. A solver is not provided, but instead interfaces to the packages 'deSolve' and 'dde' are generated. With these, while solving the differential equations, no allocations are done and the calculations remain entirely in compiled code. Alternatively, a model can be transpiled to R for use in contexts where a C compiler is not present. After compilation, models can be inspected to return information about parameters and outputs, or intermediate values after calculations. 'odin' is not targeted at any particular domain and is suitable for any system that can be expressed primarily as mathematical expressions. Additional support is provided for working with delays (delay differential equations, DDE), using interpolated functions during interpolation, and for integrating quantities that represent arrays.

Install

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

install.packages("odin", 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("mrc-ide/odin")

Development version from mrc-ide/odin. 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-odin

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-odin

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-odin

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 3.7 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-07
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.2.7

READMEYes · 1,182 wordsVignettesYes · 3 · dynamicNEWSYes · 100% structured · does not mention 1.2.7Citation fileNo

Help pages: 9
Examples that run: 100%9 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 44%
Help pages citing references: 0%

Vignettes (3)

How these are measured

Downloads

13.9K

CRAN downloads in the past year

Rank #4,155 · ~38/day · ~1.2K/mo

Releases R versions

Daily download trend is not available in this view yet.

86930 days

2.2K90 days

13.9K1 year

Compare downloads with other packages →

Also on183 r2u7 autocran101 c2d4u

How downloads are counted

Repository

mrc-ide/odin ↗Organization: mrc-ide

106Stars

11Forks

77Open issues

2Open PRs

44Releases

1,557Commits

8Commit identities

infrastructure

1,557 commits · Last activity 2026-01-15 · Default branch at 1.5.12, ahead of CRAN 1.2.7 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 92%
Median days to close, 50 most recently updated closed issues: 41
Median days to close, 50 most recently updated closed PRs: 6

Stars over time

2025-09-10 · 1062026-07-07 · 106

How these are measured

PracticesBeta

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

Checks run against github.com/mrc-ide/odin on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (2)

GitHub Pages site last deployed 2026-01-15 · The repository has a site deploy workflow

Coverage (1)

Coverage reporting

Reproducibility and dev environment (1)

Makefile

Show all practicesHide 2 practices

Lint, format, editor (1)

lintr

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing odin adds 8 packages (6 with compiled code, 3.7 MB of source tarballs). Heaviest: deSolve 1.9 MB, jsonlite 1.0 MB, ring 279 KB.

Depends (0)

none

Imports (8)

R6 cinterpolate deSolve digest glue jsonlite ring withr

LinkingTo (0)

none

Suggests (9)

dde jsonvalidate knitr mockery pkgbuild pkgload rlang rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

MetaRVM

How these are counted

Code & Tests

People & History

People (3)

Rich FitzJohn

Author, Maintainer since 1.0.1 (2019)

Thibaut Jombart

Contributor

Imperial College of Science, Technology and Medicine

Copyright holder

Releases (8)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.2.7Latest
record
2025-02-07 · current release · diff ↗
1.2.6
record
2024-09-23 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.2.5
record
2023-10-02 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.2.4
record
2022-04-28 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.2.1
record
2021-07-14 · diff ↗
1.2.0
record
2021-07-07 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.8
record
2020-10-28 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.0.1
record
2019-07-02
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-07-02
Total releases: 8 / 7 yrs
License: MIT + file LICENSE OSI
Download size: 1.1 MB

Appears in task views

Differential Equations Epidemiology

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("odin")

Format

FitzJohn, R., Imperial College of Science, Technology and Medicine, & Jombart, T. (2025). odin: ODE Generation and Integration (Version 1.2.7) [Computer software]. https://doi.org/10.32614/CRAN.package.odin

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for odin version 1.2.7 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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