genetics

1.3.8.1.3

Population Genetics

4packages depend

62.5Kdownloads / year

10.1%test coverage

0/13checks pass

Overview

About

Maintained by Gregory WarnesFirst published 2002-11-1326 releasesCRAN page ↗

Classes and methods for handling genetic data. Includes classes to represent genotypes and haplotypes at single markers up to multiple markers on multiple chromosomes. Function include allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium, ...

Install

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

install.packages("genetics", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

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-genetics

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-genetics

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-genetics

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: 1.5 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

10.1%

Coverage · measured lines

98%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-03-10
0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 94%
Return-value docs: 89%
References docs: 35%

Downloads

62.5K

CRAN downloads in the past year

Rank #1,723 · ~171/day · ~5.2K/mo

Releases R versions

Daily download trend is not available in this view yet.

3.2K30 days

14.8K90 days

62.5K1 year

Compare downloads with other packages →

Also on152 r2u297 autocran2.5K conda_forge57 c2d4u

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (5)

combinat gdata gtoolsMASSmvtnorm

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

4direct

1indirect

MasterBayes PopGenReport pedtricks gap

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (4)

Friedrich Leisch

no longer listed · 0.6.4 to 1.3.8.1.3

Gregory Warnes

no longer listed · 0.6.4 to 1.3.8.1.3

with contributions from Gregor Gorjanc

no longer listed · 1.3.0 to 1.3.8.1.3

and Michael Man.

no longer listed · 1.3.0 to 1.3.8.1.3

Package Timeline

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

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R 4.3.0 released · 2023-04-21
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R 4.2.0 released · 2022-04-22
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R 4.1.0 released · 2021-05-18
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R 3.6.0 released · 2019-04-26
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2019-02-01 · diff ↗
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R 3.5.0 released · 2018-04-23
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R 3.4.0 released · 2017-04-21
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R 3.3.0 released · 2016-05-03
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R 3.2.0 released · 2015-04-16
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R 3.1.0 released · 2014-04-10

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1.3.8.1
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1.3.7
2012-08-14 · diff ↗
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R 2.15.0 released · 2012-03-30
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R 2.14.0 released · 2011-10-31
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R 2.13.0 released · 2011-04-13
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R 2.12.0 released · 2010-10-15
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R 2.11.0 released · 2010-04-22
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R 2.10.0 released · 2009-10-26
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R 2.9.0 released · 2009-04-17
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R 2.8.0 released · 2008-10-20
1.3.4
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R 2.7.0 released · 2008-04-22
1.3.2
2007-11-21 · diff ↗
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R 2.6.0 released · 2007-10-03
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R 2.5.0 released · 2007-04-24
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R 2.4.0 released · 2006-10-03
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R 2.2.0 released · 2005-10-06
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R 2.1.0 released · 2005-04-18
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1.1.1
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R 2.0.0 released · 2004-10-04
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1.0.4
2004-05-27 · diff ↗
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R 1.9.0 released · 2004-04-12
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2003-12-04 · diff ↗
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R 1.8.0 released · 2003-10-08
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2003-06-06 · diff ↗
1.0.0
2003-05-30 · diff ↗
0.6.8
2003-04-23 · diff ↗
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R 1.7.0 released · 2003-04-16
0.6.6
2003-02-03 · diff ↗
0.6.4
2002-11-13
R
R 1.6.0 released · 2002-10-01

Package metadata

First published: 2002-11-13
Total releases: 26 / 24 yrs
License: GPL
Bundled data: 0.4 KB / 1 file
Download size: 195 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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