kgp

1.1.1

1000 Genomes Project Metadata

0packages depend

2.3Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Stephen TurnerFirst published 2022-09-133 releasesCRAN page ↗GitHub ↗

Metadata about populations and data about samples from the 1000 Genomes Project, including the 2,504 samples sequenced for the Phase 3 release and the expanded collection of 3,202 samples with 602 additional trios. The data is described in Auton et al. (2015) doi:10.1038/nature15393 and Byrska-Bishop et al. (2022) doi:10.1016/j.cell.2022.08.004, and raw data is available at http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/. See Turner (2022) doi:10.48550/arXiv.2210.00539 for more details.

Install

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

install.packages("kgp", 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("stephenturner/kgp")

Development version from stephenturner/kgp. 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-kgp

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-kgp

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-kgp

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

Health

CRAN checks

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 47 s · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-07-16
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-07-15
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 951 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 80%

Downloads

2.3K

CRAN downloads in the past year

Rank #18,045 · ~6/day · ~194/mo

Releases R versions

Daily download trend is not available in this view yet.

17930 days

60890 days

2.3K1 year

Compare downloads with other packages →

Also on87 r2u4 autocran

Repository

GitHub ↗ stephenturner/kgp

21Stars

4Forks

5Open issues

0Open PRs

3Releases

33Commits

1Contributors

1000genomesbioinformaticsgeneticsgenomicsmetadatapopulation-geneticssequencing

33 commits · Last activity 2025-10-27 · 0% stars, 30d

Stars over time

2025-02-24 · 202026-07-07 · 21

Repository practices

Upstream repositoryBeta

6 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/stephenturner/kgp on 2026-07-31.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Research and citation (1)

CITATION.cff

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (0)

none

LinkingTo (0)

none

Suggests (1)

tibble

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Stephen Turner

Author, Maintainer

Authors (1)

Stephen Turner

Author, Maintainer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
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
1.1.1Latest
2022-12-21 · current release · diff ↗
1.1.0
2022-10-05 · diff ↗
1.0.0
2022-09-13
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-09-13
Total releases: 3 / 4 yrs
License: Apache License (>= 2)
Minimum R: ≥ 2.10
Bundled data: 0.6 KB / 1 file
Download size: 302 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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