randPedPCA

1.1.3

Fast PCA for Large Pedigrees

0packages depend

2.1Kdownloads / year

70.3%test coverage

13/13checks pass

Overview

About

Maintained by Hannes BecherFirst published 2025-04-244 releasesCRAN page ↗

Carry out principal component analysis (PCA) of very large pedigrees such as found in breeding populations! This package exploits sparse matrices and randomised linear algebra to deliver a gazillion-times speed-up compared to naive singular value decoposition (SVD) (and eigen decomposition).

Install

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

install.packages("randPedPCA", 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-randpedpca

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

# 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-randPedPCA

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

Health

CRAN checks

13OK

Slowest check: 3.4 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.34

70.3%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-08
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-07
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 93%
Return-value docs: 100%
References docs: 0%

Downloads

2.1K

CRAN downloads in the past year

Rank #21,591 · ~6/day · ~178/mo

Releases R versions

Daily download trend is not available in this view yet.

16830 days

53890 days

2.1K1 year

Compare downloads with other packages →

Also on109 r2u24 autocran

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (6)

R >= 3.5spamMatrixmethodspedigreeTools RSpectra

Imports (0)

none

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown testthat rgl

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Hannes Becher

Maintainer

Authors (3)

Ros Craddock

Author

Gregor Gorjanc

Author

Hanbin Lee

Author

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.1.3Latest
2025-07-22 · current release · diff ↗
1.1.2
2025-06-16 · diff ↗
1.0.1
2025-04-24 · diff ↗
1.0.0
2025-04-24
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-04-24
Total releases: 4 / 1 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5
Bundled data: 462 KB / 6 files
Download size: 2.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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