R Observatory: Metrics for ceas version 1.3.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ceas

1.3.0

Cellular Energetics Analysis Software

0packages depend

3Kdownloads / year

10.5%test coverage

0/13checks pass

Overview

About

Maintained by Rachel HouseFirst published 2024-05-072 releasesCRAN page ↗GitHub ↗

Measuring cellular energetics is essential to understanding a matrix’s (e.g. cell, tissue or biofluid) metabolic state. The Agilent Seahorse machine is a common method to measure real-time cellular energetics, but existing analysis tools are highly manual or lack functionality. The Cellular Energetics Analysis Software (ceas) R package fills this analytical gap by providing modular and automated Seahorse data analysis and visualization using the methods described by Mookerjee et al. (2017) doi:10.1074/jbc.m116.774471.

Install

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

install.packages("ceas", 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("jamespeapen/ceas")

Development version from jamespeapen/ceas. 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-ceas

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-ceas

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-ceas

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

Health

CRAN checks

13NOTE

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
NOTE r-oldrel-macos-arm64
NOTE r-oldrel-macos-x86_64
NOTE r-oldrel-windows-x86_64
NOTE r-patched-linux-x86_64
NOTE r-release-linux-x86_64
NOTE r-release-macos-arm64
NOTE r-release-macos-x86_64
NOTE r-release-windows-x86_64

Slowest check: 3.5 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

10.5%

Coverage · measured lines

100%

Documentation · exports

5

Dependencies · direct

Check history

NOTE2026-04-25
0 OK · 12 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-10
2 OK · 11 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE

Documentation

READMEYes · 253 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 96%
Return-value docs: 100%
References docs: 7%

Downloads

3K

CRAN downloads in the past year

Rank #16,790 · ~8/day · ~253/mo

Releases R versions

Daily download trend is not available in this view yet.

17830 days

65690 days

3K1 year

Compare downloads with other packages →

Also on372 r2u38 autocran

Repository

GitHub ↗ jamespeapen/ceas

2Stars

0Forks

0Open issues

0Open PRs

5Releases

196Commits

2Contributors

196 commits · Last activity 2026-02-10 · 0% stars, 30d

Stars over time

2023-10-31 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

4 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/jamespeapen/ceas on 2026-08-23.

Continuous integration (1)

GitHub Actions

Research and citation (1)

CITATION.cff

Lint, format, editor (1)

lintr

Governance and community (1)

Issue templates

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

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (5)

data.table ggplot2 lme4 readxlstats

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (6)

Maintainer (1)

Rachel House

Author, Maintainer

Authors (2)

Rachel House

Author, Maintainer

James P. Eapen

Author · added in 1.3.0

Copyright holders (1)

Van Andel Institute

Copyright holder

Funders (3)

Carrie R. Graveel

Funder · added in 1.3.0

Hui Shen

Funder

Matthew R. Steensma

Funder · added in 1.3.0

Listed in earlier versions (3)

James Eapen

no longer listed · 1.0.0

Carrie Graveel

no longer listed · 1.0.0

Matthew Steensma

no longer listed · 1.0.0

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
1.3.0Latest
2024-12-21 · current release · diff ↗
1.0.0
2024-05-07
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-05-07
Total releases: 2 / 2 yrs
License: MIT + file LICENSE OSI
Download size: 2.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ceas")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 ceas version 1.3.0 [Data set]. HJJB, LLC. Data release v2026-08-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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