R Observatory: Metrics for gaawr2 version 0.0.9

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

gaawr2

0.0.9Package record

Genetic Association Analysis

0packages depend

3.9Kdownloads / year

100.0%test coverage

13/13flavors OK

Overview

About

Maintained by Jing Hua ZhaoCRAN page ↗GitHub ↗Website ↗Issues ↗

This is a companion to Henry-Stewart talk by Zhao (2026, doi:10.69645/FRFQ9519), which gathers information, metadata and scripts to showcase modern genetic analysis -- ranging from testing of polymorphic variant(s) for Hardy-Weinberg equilibrium, association with traits using genetic and statistical models, Bayesian implementation, power calculation in study design, and genetic annotation. It also covers R integration with the Linux environment, GitHub, package creation and web applications. The earlier version by Zhao (2009, doi:10.69645/DCRY5578) provides a brief introduction to these topics.

Changes in 0.0.9

(2026/10/23)

Adapt ~/R/docs/gaawr2.sh as cran.sh.
Add to guard the tests/ runner, and suggest rmarkdown.
Employ _R_CHECK_DEPENDS_ONLY_=true R CMD check as suggested by Prof Brian Ripley.
Employ VignetteBuilder: knitr, rmarkdown, bookdown.
Fix VignetteIndexEntry()/style="width:100%" in {gaawr2, web}_cran.Rmd.
Integration of parent/child in {gaawr2, web}.Rmd.

From NEWS.md in the release

Install

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

install.packages("gaawr2", 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("jinghuazhao/gaawr2")

Development version from jinghuazhao/gaawr2. 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-gaawr2

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-gaawr2

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-gaawr2

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

Additional issues

noSuggests

CRAN check page ↗

Slowest check: 2.4 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK12 OK2026-04-25

Show 2 earlier changesHide 2 earlier changes

NOTE12 OK, 2 NOTE2026-03-11
ERROR11 OK, 1 NOTE, 2 ERROR2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.0.9

READMEYes · 143 wordsVignettesYes · 2 · dynamicNEWSYes · 100% structured · mentions 0.0.9Citation fileNoWebsiteYes · pkgdown

Help pages: 4 (3 internal)includes a package overview page
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 25% with a bibliography file

Vignettes (2)

How these are measured

Downloads

3.9K

CRAN downloads in the past year

Rank #9,980 · ~11/day · ~327/mo

Releases R versions

Daily download trend is not available in this view yet.

36830 days

1K90 days

3.9K1 year

Compare downloads with other packages →

Also on92 r2u2 autocran

How downloads are counted

Repository

jinghuazhao/gaawr2 ↗Account: jinghuazhao

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2026-10-23

Responsiveness

not measured

How these are measured

PracticesBeta

5 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/jinghuazhao/gaawr2 on 2026-10-21.

Continuous integration (1)

GitHub Actions

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-06-23 · The repository has a site deploy workflow

pkgdown site last built 2026-06-23, before release 0.0.9 (2026-10-23)

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

Dependencies

Declared dependencies

31 external dependencies (excludes base and recommended)

Installing gaawr2 adds 68 packages (37 with compiled code, 67 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (6)

dplyr gap gap.datasets ggplot2survivalRdpack

LinkingTo (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Jing Hua Zhao

Author, Maintainer since 0.0.2 (2025)

Benjamin Altmann

Contributor

Brian Ripley

Contributor · added in 0.0.3

Releases (6)

Pick two releases to compare their code metrics.

0.0.9Latest
record
2026-10-23 · current release · diff ↗
0.0.8
record
2026-06-17 · diff ↗
R
R 4.6.0 released · 2026-04-24
0.0.7
record
2026-01-30 · diff ↗
0.0.5
record
2026-01-30 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.0.3
record
2025-03-24 · diff ↗
0.0.2
record
2025-02-21
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-02-21
Total releases: 6 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Bundled data: 59 KB / 3 files
Download size: 399 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("gaawr2")

Format

Zhao, J. H., Altmann, B., & Ripley, B. (2026). gaawr2: Genetic Association Analysis (Version 0.0.9) [Computer software]. https://doi.org/10.32614/CRAN.package.gaawr2

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 gaawr2 version 0.0.9 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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