R Observatory: Metrics for goat version 1.1.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

goat

1.1.5

Gene Set Analysis Using the Gene Set Ordinal Association Test

0packages depend

4.5Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Frank KoopmansFirst published 2024-04-306 releasesCRAN page ↗GitHub ↗

Perform gene set enrichment analyses using the Gene set Ordinal Association Test (GOAT) algorithm and visualize your results. Koopmans, F. (2024) doi:10.1038/s42003-024-06454-5.

Install

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

install.packages("goat", 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("ftwkoopmans/goat")

Development version from ftwkoopmans/goat. 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-goat

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-goat

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-goat

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

Health

CRAN checks

13OK

Slowest check: 3.3 min · r-devel-windows-x86_64

Code health

Yes

Tests · ratio 0.00

0.0%

Coverage · measured lines

100%

Documentation · exports

16

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
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
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 3 earlier snapshots

NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 2,197 wordsVignettesNopkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 40%
Documented parameters: 98%
Return-value docs: 95%
References docs: 0%

Downloads

4.5K

CRAN downloads in the past year

Rank #10,326 · ~12/day · ~371/mo

Releases R versions

Daily download trend is not available in this view yet.

27030 days

93390 days

4.5K1 year

Compare downloads with other packages →

Also on451 r2u22 autocran345 conda_forge

Repository

GitHub ↗ ftwkoopmans/goat

15Stars

1Forks

1Open issues

0Open PRs

6Releases

25Commits

3Contributors

bioinformaticsgeneset-enrichmentgeneset-enrichment-analysis

License Apache-2.0 · 25 commits · Last activity 2026-07-11

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/ftwkoopmans/goat on 2026-08-16.

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

28 external dependencies (excludes base and recommended)

Depends (2)

R >= 4.1.0dplyr

Imports (15)

tibble tidyselect tidyr data.tableMatrixreadxl writexl Rcpp vctrs MonoPoly ggplot2 pheatmap treemap igraph ggraph

LinkingTo (1)

Rcpp

Suggests (12)

AnnotationDbi GO.db org.Hs.eg.db org.Pt.eg.db org.Mmu.eg.db org.Mm.eg.db org.Rn.eg.db org.Dr.eg.db org.Dm.eg.db org.Ce.eg.db fgsea testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Frank Koopmans

Author, Maintainer

Authors (1)

Frank Koopmans

Author, Maintainer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.1.5Latest
2026-02-04 · current release · diff ↗
1.1.4
2026-01-24 · diff ↗
1.1.3
2025-08-27 · diff ↗
unarchivedReturned to CRAN
2025-08-27
archivedRemoved from CRAN
2025-08-25
policy violation On Internet access
R
R 4.5.0 released · 2025-04-11
1.1.2
2025-02-22 · diff ↗
1.1
2025-01-19 · diff ↗
1.0
2024-04-30
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-04-30
Total releases: 6 / 2 yrs
License: Apache License (>= 2)
Minimum R: ≥ 4.1.0
Bundled data: 3.5 MB / 1 file
Download size: 3.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("goat")

Format

Koopmans, F. (2026). goat: Gene Set Analysis Using the Gene Set Ordinal Association Test (Version 1.1.5) [Computer software]. https://doi.org/10.32614/CRAN.package.goat

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 goat version 1.1.5 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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