plinkFile

0.2.1

'PLINK' (and 'GCTA') File Helpers

0packages depend

15.8Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Xiaoran TongFirst published 2020-04-052 releasesCRAN page ↗

Reads/write binary genotype file compatible with 'PLINK' <https://www.cog-genomics.org/plink/1.9/input#bed> into/from a R matrix; traverse genotype data one windows of variants at a time, like apply() or a for loop; reads/writes genotype relatedness/kinship matrices created by 'PLINK' <https://www.cog-genomics.org/plink/1.9/distance#make_rel> or 'GCTA' <https://cnsgenomics.com/software/gcta/#MakingaGRM> into/from a R square matrix. It is best used for bringing data produced by 'PLINK' and 'GCTA' into R workflow.

Install

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

install.packages("plinkFile")

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

Release

# one-time r2u setup for Ubuntu (noble)

curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash

# then install

sudo apt install r-cran-plinkfile

Fast Ubuntu binaries via r2u (no compilation). Run the setup once per machine.

bspm (used by r2u) also needs make: sudo apt install make

sudo dnf copr enable iucar/cran

sudo dnf install R-CRAN-plinkFile

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

sudo zypper install R-plinkFile

RPMs auto-built from CRAN on openSUSE OBS.

Health

CRAN checks

13OK

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

None

Vignettes

README

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

15.8K

CRAN downloads in the past year

Rank #20,177 · ~43/day · ~1.3K/mo

21730 days

59590 days

15.8K1 year

Also on94 r2u19 autocran

Source & community

Repository stars, issues, and contributor activity are not tracked yet.

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code

2,155Lines of code

14Exported functions

Code & tests

Open call graph →

Line coverage

–

Expression

–

Tests / Examples

–

Functions

29 14 exported

Complexity

5.1 avg / 24 max

Call network

29 nodes / 33 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (1)

Maintainer (1)

Xiaoran Tong

Author, Maintainer

Release timeline

2 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
0.2.1Latest
2023-11-24 · current release
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.1.0
2020-04-05

Package metadata

First published: 2020-04-05
Total releases: 2 / 6 yrs
License: GPL (>= 2) OSI
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet