R Observatory: Metrics for PopGenHelpR version 1.4.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

PopGenHelpR

1.4.2

Streamline Population Genomic and Genetic Analyses

0packages depend

6.5Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Keaka FarleighFirst published 2023-02-138 releasesCRAN page ↗GitHub ↗

Estimate commonly used population genomic statistics and generate publication quality figures. 'PopGenHelpR' uses vcf, 'geno' (012), and csv files to generate output.

Install

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

install.packages("PopGenHelpR", 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("kfarleigh/PopGenHelpR")

Development version from kfarleigh/PopGenHelpR. 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-popgenhelpr

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-PopGenHelpR

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

Slowest check: 1.9 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.00

0.0%

Coverage · measured lines

100%

Documentation · exports

15

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
OK2026-07-27
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-07-23
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

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

Documentation

READMEYes · 196 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 7%
Documented parameters: 100%
Return-value docs: 100%
References docs: 13%

Downloads

6.5K

CRAN downloads in the past year

Rank #7,759 · ~18/day · ~545/mo

Releases R versions

Daily download trend is not available in this view yet.

19630 days

1.1K90 days

6.5K1 year

Compare downloads with other packages →

Also on126 r2u

Repository

GitHub ↗ kfarleigh/popgenhelpr

5Stars

1Forks

0Open issues

0Open PRs

0Releases

243Commits

3Contributors

diversityfstheterozygosityinterpolationneispopulation-geneticspopulation-genomicsr

License GPL-3.0 · 243 commits · Last activity 2026-06-22 · 0% stars, 30d

Stars over time

2023-09-29 · 32026-07-07 · 5

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/kfarleigh/popgenhelpr on 2026-08-16.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

15 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (15)

dplyr ggplot2 magrittrmethodsreshape2 rlang scatterpiestatsgeodata terra ggspatial spdep sfutilsvcfR

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Keaka Farleigh

Author, Copyright holder, Maintainer

Authors (4)

Keaka Farleigh

Author, Copyright holder, Maintainer

Christopher Blair