RapidoPGS

2.3.2

A Fast and Light Package to Compute Polygenic Risk Scores

0packages depend

1.4Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Guillermo RealesFirst published 2026-04-036 releasesCRAN page ↗

Quickly computes polygenic scores from GWAS summary statistics of either case-control or quantitative traits without parameter tuning. Reales,G., Vigorito, E., Kelemen,M., Wallace,C. (2021) doi:10.1101/2020.07.24.220392 "RápidoPGS: A rapid polygenic score calculator for summary GWAS data without a test dataset".

Install

R (CRAN)Ubuntu (r2u)

install.packages("RapidoPGS", 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-rapidopgs

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

Health

CRAN checks

1NOTE12OK

Failing flavors

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

Slowest check: 6.3 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-03
5 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 560 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 50%
Documented parameters: 98%
Return-value docs: 80%
References docs: 0%

Downloads

1.4K

CRAN downloads in the past year

Rank #11,374 · ~4/day · ~116/mo

Releases R versions

Daily download trend is not available in this view yet.

25330 days

89190 days

1.4K1 year

Compare downloads with other packages →

Also on217 r2u

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Depends (5)

R >= 4.3data.table RCurl curl magrittr

Imports (6)

dplyr GenomicRanges IRanges (>= 2.34.1)bigsnpr coloc bigreadr (>= 0.2.5)

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown GenomeInfoDb

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Guillermo Reales

Author, Maintainer

Authors (2)

Guillermo Reales

Author, Maintainer

Chris Wallace

Author

Contributors (1)

Olly Burren

Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
2.3.2Latest
2026-04-03 · current release · diff ↗
unarchivedReturned to CRAN
2026-04-03
archivedRemoved from CRAN
2025-11-07
issues were not corrected despite reminders
R
R 4.5.0 released · 2025-04-11
2.3.1
2025-02-19 · diff ↗
R
R 4.4.0 released · 2024-04-24
2.3.0
2023-10-13 · diff ↗
R
R 4.3.0 released · 2023-04-21
2.2.0
2022-06-15 · diff ↗
R
R 4.2.0 released · 2022-04-22
2.1.0
2021-06-17 · diff ↗
unarchivedReturned to CRAN
2021-06-17
archivedRemoved from CRAN
2021-05-24
requires archived package 'bigsnpr'
R
R 4.1.0 released · 2021-05-18
1.0.2
2020-08-07

Show 1 earlier events

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2026-04-03
Total releases: 6 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.3
Bundled data: 3.5 MB / 4 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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