R Observatory: Metrics for GenomeAdmixR version 2.1.13.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GenomeAdmixR

2.1.13.2Package record

Simulate Admixture of Genomes

0packages depend

4.1Kdownloads / year

87.8%test coverage

13/13flavors OK

Overview

About

Maintained by Thijs JanzenCRAN page ↗GitHub ↗Issues ↗

Individual-based simulations forward in time, simulating how patterns in ancestry along the genome change after admixture. Full description can be found in Janzen (2021) doi:10.1111/2041-210X.13612.

Install

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

install.packages("GenomeAdmixR", 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("thijsjanzen/GenomeAdmixR")

Development version from thijsjanzen/GenomeAdmixR. 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-genomeadmixr

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-GenomeAdmixR

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 7.4 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-29
ERROR12 OK, 1 ERROR2026-07-25
OK13 OK2026-05-22

Show 9 earlier changesHide 9 earlier changes

ERROR12 OK, 1 ERROR2026-05-20
OK12 OK2026-04-25
NOTE12 OK, 2 NOTE2026-04-22
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-18
NOTE12 OK, 2 NOTE2026-04-09
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-08
NOTE12 OK, 2 NOTE2026-03-19
ERROR11 OK, 2 NOTE, 1 ERROR2026-03-12
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.1.13.2

READMEYes · 814 wordsVignettesYes · 5 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 41 (1 internal)includes a package overview page
Examples that run: 92%11 run in a plain check · 1 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 33%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 5%

Vignettes (5)

How these are measured

Downloads

4.1K

CRAN downloads in the past year

Rank #6,805 · ~11/day · ~338/mo

Releases R versions

Daily download trend is not available in this view yet.

54930 days

1.2K90 days

4.1K1 year

Compare downloads with other packages →

Also on413 r2u

How downloads are counted

Repository

thijsjanzen/genomeadmixr ↗Account: thijsjanzen

5Stars

3Forks

0Open issues

0Open PRs

3Releases

702Commits

3Commit identities

702 commits · Last activity 2026-05-14 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 41
Median days to close, 50 most recently updated closed PRs: 1

Stars over time

2023-11-12 · 52026-07-07 · 5

How these are measured

PracticesBeta

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

Checks run against github.com/thijsjanzen/genomeadmixr on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Coverage (1)

Coverage reporting

Lint, format, editor (1)

RStudio project

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Installing GenomeAdmixR adds 72 packages (44 with compiled code, 85 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, bslib 5.6 MB.

Depends (1)

R >= 2.10

Imports (9)

ggplot2 ggridges hierfstat Rcpp RcppParallel rlang stringr tibble vcfR

LinkingTo (3)

Rcpp RcppArmadillo RcppParallel

Suggests (8)

dplyr junctions knitr magrittr rmarkdown testit testthat pbapply

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)

Thijs Janzen

Author, Maintainer since 1.1.2 (2021)

Richèl J.C. Bilderbeek

Contributor

Fernando Diaz G.

Contributor

Releases (10)

Pick two releases to compare their code metrics.

2.1.13.2Latest
record
2026-05-14 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
2.1.12
record
2025-06-20 · diff ↗
2.1.11
record
2025-05-20 · diff ↗
2.1.10
record
2025-05-16 · diff ↗ ·
added 1 export
default_params_doc
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
unarchivedReturned to CRAN
2022-03-01
2.1.7
record
2022-03-01 · diff ↗
archivedRemoved from CRAN
2022-01-19
policy violation On not removing debugging information
2.1.2
record
2022-01-15 · diff ↗
R
R 4.1.0 released · 2021-05-18
2.1.1
record
2021-03-30 · diff ↗
2.0.2
record
2021-02-26 · diff ↗ ·
removed 1 export
simulate_admixture_migration

added 14 exports
ancestry_module, combine_input_data, create_artificial_genomeadmixr_data, iso_female_ancestry, iso_female_sequence, migration_settings, plink_to_genomeadmixr_data, read_input_data, sequence_module, simulate_ancestry_migration, simulate_sequence_migration, simulation_data_to_genomeadmixr_data, vcfR_to_genomeadmixr_data, write_as_plink

Show 3 earlier eventsHide 3 earlier events

1.1.3
record
2021-01-25 · diff ↗
1.1.2
record
2021-01-21
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-01-21
Total releases: 10 / 5 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Bundled data: 298 KB / 1 file
Download size: 1.5 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GenomeAdmixR")

Format

Janzen, T., Bilderbeek, R. J. C., & Diaz G., F. (2026). GenomeAdmixR: Simulate Admixture of Genomes (Version 2.1.13.2) [Computer software]. https://doi.org/10.32614/CRAN.package.GenomeAdmixR

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 GenomeAdmixR version 2.1.13.2 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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