R Observatory: Metrics for gap version 1.15.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

gap

1.15.2

Genetic Analysis Package

6packages depend

321.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jing Hua ZhaoFirst published 2004-01-1455 releasesCRAN page ↗GitHub ↗

As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18. doi:10.18637/jss.v023.i08], it is designed as an integrated package for genetic data analysis of both population and family data. Currently, it contains functions for sample size calculations of both population-based and family-based designs, probability of familial disease aggregation, kinship calculation, statistics in linkage analysis, and association analysis involving genetic markers including haplotype analysis with or without environmental covariates. Over years, the package has been developed in-between many projects hence also in line with the name (gap).

Install

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

install.packages("gap", 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/R")

Development version from jinghuazhao/R. 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-gap

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-gap

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-gap

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

Health

CRAN checks

13OK

Slowest check: 4.2 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

5

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
OK2026-06-27
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-23
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 4 earlier snapshots

ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-31
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-05-13
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 19%
Documented parameters: 100%
Return-value docs: 90%
References docs: 43%

Downloads

321.3K

CRAN downloads in the past year

Rank #664 · ~880/day · ~26.8K/mo

Releases R versions

Daily download trend is not available in this view yet.

29.9K30 days

86K90 days

321.3K1 year

Compare downloads with other packages →

Also on1.4K r2u158 autocran9.6K conda_forge416 bioconda57 c2d4u

Repository

GitHub ↗ jinghuazhao/r

13Stars

4Forks

5Open issues

0Open PRs

0Releases

3,000Commits

4Contributors

geneticslmmimputation

3,000 commits · Last activity 2026-08-06 · 0% stars, 30d

Stars over time

2024-03-15 · 122026-07-07 · 13

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/jinghuazhao/r on 2026-08-09.

Continuous integration (1)

GitHub Actions

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

Dependencies

Declared dependencies

36 external dependencies (excludes base and recommended)

Depends (2)

R >= 2.10gap.datasets

Imports (4)

dplyr ggplot2 plotly Rdpack

LinkingTo (0)

none

Suggests (38)

BradleyTerry2 DiagrammeRMASSMatrixMCMCglmm R2jags bdsmatrix bookdown calibrate circlize coda cowplot coxmeforeigngeneticsgrDeviceshaplo.stats htmltools htmlwidgets jsonlite kinship2 knitrlatticemagic matrixStats meta metafornlmepedigree pedigreemm plotrix readr reshape rmarkdown rms scalessurvivalvalr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

6direct

12indirect

BayesianTools DHARMa PopGenReport gaawr2 pould rehh

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Jing Hua Zhao

Author, Maintainer · added in 1.0-15

Authors (1)

Jing Hua Zhao

Author, Maintainer · added in 1.0-15

Contributors (4)

Kurt Hornik

Contributor · added in 1.2.3-6

Uwe Ligges

Contributor · added in 1.5-3

Brian Ripley

Contributor · added in 1.0-15

Achim Zeileis

Contributor · added in 1.3-1

Listed in earlier versions (6)

Jing Hua Zhao in collaboration with other colleagues

no longer listed · 0.3 to 1.0-14

and with help from Kurt Hornik of the R core development team

no longer listed · 0.3 to 0.4

and with help from Kurt Hornik

no longer listed · 0.5 to 1.0-14

Brian Ripley of the R core development team

no longer listed · 0.5 to 1.0-14

colleagues with inputs from Kurt Hornik

no longer listed · 1.0-15 to 1.2.3-1

Uwe Liggs

no longer listed · 1.2.3-6 to 1.5-1

Package Timeline

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

1.15.2Latest
2026-05-28 · current release · diff ↗
1.15.1
2026-05-24 · diff ↗
R
R 4.6.0 released · 2026-04-24
1.14
2026-02-19 · diff ↗
1.9
2026-02-06 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.6
2024-08-27 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.5-3
2023-08-26 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.5-1
2023-01-22 · diff ↗
1.5
2023-01-13 · diff ↗
1.4-2
2023-01-09 · diff ↗
1.3-1
2022-10-21 · diff ↗
1.2.3-6
2022-05-14 · diff ↗
R
R 4.2.0 released · 2022-04-22

Show 71 earlier events

R
R 4.1.0 released · 2021-05-18
1.2.3-1
2021-04-21 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.2.2
2020-02-02 · diff ↗
1.2.1
2019-06-05 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.1-22
2018-06-08 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.1-21
2018-01-24 · diff ↗
1.1-20
2017-11-25 · diff ↗
R
R 3.4.0 released · 2017-04-21
1.1-17
2017-04-19 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.1-16
2015-06-06 · diff ↗
1.1-14
2015-06-04 · diff ↗
1.1-13
2015-06-03 · diff ↗
R
R 3.2.0 released · 2015-04-16
1.1-12
2014-08-18 · diff ↗
R
R 3.1.0 released · 2014-04-10
1.1-10
2013-09-30 · diff ↗
1.1-9
2013-04-08 · diff ↗
R
R 3.0.0 released · 2013-04-03
1.1-8
2013-02-26 · diff ↗
R
R 2.15.0 released · 2012-03-30
1.1-6
2012-03-15 · diff ↗
1.1-3
2011-12-06 · diff ↗
R
R 2.14.0 released · 2011-10-31
1.1-2
2011-05-03 · diff ↗
R
R 2.13.0 released · 2011-04-13
1.1-1
2010-12-10 · diff ↗
1.1-0
2010-11-17 · diff ↗
R
R 2.12.0 released · 2010-10-15
1.0-23
2010-06-25 · diff ↗
R
R 2.11.0 released · 2010-04-22
1.0-22
2010-01-02 · diff ↗
1.0-21
2009-11-22 · diff ↗
R
R 2.10.0 released · 2009-10-26
1.0-20
2009-08-26 · diff ↗
R
R 2.9.0 released · 2009-04-17
1.0-17
2009-01-02 · diff ↗
R
R 2.8.0 released · 2008-10-20
R
R 2.7.0 released · 2008-04-22
1.0-15
2008-04-10 · diff ↗
1.0-14
2008-03-02 · diff ↗
R
R 2.6.0 released · 2007-10-03
1.0-13
2007-10-02 · diff ↗
1.0-12
2007-07-31 · diff ↗
1.0-11
2007-06-14 · diff ↗
R
R 2.5.0 released · 2007-04-24
1.0-10
2007-01-05 · diff ↗
R
R 2.4.0 released · 2006-10-03
1.0-9
2006-09-21 · diff ↗
R
R 2.3.0 released · 2006-04-24
1.0-8
2006-04-04 · diff ↗
1.0-6
2006-02-13 · diff ↗
1.0-5
2006-01-17 · diff ↗
R
R 2.2.0 released · 2005-10-06
1.0-3
2005-07-24 · diff ↗
R
R 2.1.0 released · 2005-04-18
1.0-2
2005-04-15 · diff ↗
1.0-1
2005-04-10 · diff ↗
0.8-3
2004-12-21 · diff ↗
R
R 2.0.0 released · 2004-10-04
0.8-2
2004-08-17 · diff ↗
R
R 1.9.0 released · 2004-04-12
0.8
2004-02-29 · diff ↗
0.7
2004-02-02 · diff ↗
0.5
2004-01-22 · diff ↗
0.4
2004-01-18 · diff ↗
0.3
2004-01-14
R
R 1.8.0 released · 2003-10-08

Package metadata

First published: 2004-01-14
Total releases: 55 / 22 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Bundled data: 0.6 KB / 4 files
Download size: 784 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Meta-Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("gap")

Format

Zhao, J. H., Hornik, K., Ligges, U., Ripley, B., & Zeileis, A. (2026). gap: Genetic Analysis Package (Version 1.15.2) [Computer software]. https://doi.org/10.32614/CRAN.package.gap

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 gap version 1.15.2 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →