GLMMcosinor

0.2.1

Fit a Cosinor Model Using a Generalized Mixed Modeling Framework

0packages depend

7.2Kdownloads / year

94.4%test coverage

13/13checks pass

Overview

About

Maintained by Rex ParsonsFirst published 2024-01-112 releasesCRAN page ↗GitHub ↗

Allows users to fit a cosinor model using the 'glmmTMB' framework. This extends on existing cosinor modeling packages, including 'cosinor' and 'circacompare', by including a wide range of available link functions and the capability to fit mixed models. The cosinor model is described by Cornelissen (2014) doi:10.1186/1742-4682-11-16.

Install

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

install.packages("GLMMcosinor", 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("ropensci/GLMMcosinor")

Development version from ropensci/GLMMcosinor. 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-glmmcosinor

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-GLMMcosinor

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-GLMMcosinor

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

Health

CRAN checks

13OK

Slowest check: 7.2 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 1.76

94.4%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-13
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-30
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 377 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 89%
References docs: 5%

Downloads

7.2K

CRAN downloads in the past year

Rank #5,805 · ~20/day · ~599/mo

Releases R versions

Daily download trend is not available in this view yet.

38630 days

1.7K90 days

7.2K1 year

Compare downloads with other packages →

Also on123 r2u28 autocran

Repository

GitHub ↗ ropensci/glmmcosinor

3Stars

0Forks

5Open issues

0Open PRs

2Releases

468Commits

2Contributors

License GPL-3.0 · 468 commits · Last activity 2026-07-16

Stars over time

2025-05-09 · 32026-07-07 · 3

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/ropensci/glmmcosinor on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Research and citation (1)

codemeta.json

Lint, format, editor (1)

RStudio project

Coverage (1)

Codecov

Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (9)

assertthat cowplot ggforce ggplot2 glmmTMB lme4 rlang scalesstats

LinkingTo (0)

none

Suggests (12)

cosinor covr DHARMa dplyr DT flextable ftExtra knitr rmarkdown testthat vdiffr withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 6,556 (62%)Vignettes 1,934 (18%)Rd 1,283 (12%)Markdown 725 (7%)Other 55 (1%)

Code characteristics

Object systems

S39

Cyclomatic complexity: 3.0 median / 76 max
Test cases: 28 / 1.76 per code line

Test coverage

Line coverage

94%

Expression

92.1%

Tests / Examples

94.4% / – ex

Functions

29 8 exported

Complexity

9.5 avg / 76 max

Call network

29 nodes / 19 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

29 functions

Function	Cyclo	Coverage
fit_model_and_process exp	2	0%
sigma.cglmm	1	0%
.print_details	4	56%
print.cglmmSubTest	3	63%
validate_ci_level	3	67%
predict.cglmm	2	86%

Datasets

Bundled datasets · 2

Name	Class	Rows × Cols	Also ships in
cosinor_mixed	data.frame	150 × 3	–
vitamind	data.frame	200 × 3	–

People & History

People (8)

Maintainer (1)

Rex Parsons

Author, Maintainer

Authors (4)

Author, Maintainer

Author

Author, Funder

Author

Contributors (2)

Prasad Chunduri

Contributor, Funder

Margaret Doyle

Contributor · added in 0.2.1

Funders (2)

Oliver Rawashdeh

Author, Funder

Prasad Chunduri

Contributor, Funder

Reviewers (2)

Joaquin Cavieres

Reviewer

Michael Sachs

Reviewer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.2.1Latest
2024-11-01 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
0.2.0
2024-01-11
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2024-01-11
Total releases: 2 / 2 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.1.0
Bundled data: 6.1 KB / 2 files
Download size: 2.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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