pedbuildr

0.4.0

Pedigree Reconstruction

1packages depend

3Kdownloads / year

49.1%test coverage

9/13checks pass

Overview

About

Maintained by Magnus Dehli VigelandFirst published 2021-03-163 releasesCRAN page ↗GitHub ↗

Reconstruct pedigrees from genotype data, by optimising the likelihood over all possible pedigrees subject to given restrictions. Tailor-made plots facilitate evaluation of the output. This package is part of the 'pedsuite' ecosystem for pedigree analysis. In particular, it imports 'pedprobr' for calculating pedigree likelihoods and 'forrel' for estimating pairwise relatedness.

Install

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

install.packages("pedbuildr", 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("magnusdv/pedbuildr")

Development version from magnusdv/pedbuildr. 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-pedbuildr

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-pedbuildr

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-pedbuildr

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

Health

CRAN checks

3ERROR1NOTE9OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc
ERROR r-oldrel-macos-arm64
ERROR r-oldrel-macos-x86_64
ERROR r-oldrel-windows-x86_64

Slowest check: 2.1 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.05

49.1%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

ERROR2026-06-26
11 OK · 0 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 722 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

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

Downloads

CRAN downloads in the past year

Rank #14,620 · ~8/day · ~247/mo

Releases R versions

Daily download trend is not available in this view yet.

21730 days

71390 days

3K1 year

Compare downloads with other packages →

Also on108 r2u5 autocran

Repository

GitHub ↗ magnusdv/pedbuildr

3Stars

0Forks

0Open issues

0Open PRs

3Releases

183Commits

1Contributors

pedigree-reconstructionpedsuiterelatednessrelationship-prediction

183 commits · Last activity 2026-06-28 · 0% stars, 30d

Stars over time

2022-04-12 · 22026-07-07 · 3

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/magnusdv/pedbuildr on 2026-07-31.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (2)

R >= 4.2.0pedtools

Imports (6)

forrel glue mirai pedmut pedprobr ribd

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

pedsuite

Code & Tests

People & History

People (1)

Maintainer (1)

Magnus Dehli Vigeland

Author, Maintainer

Authors (1)

Magnus Dehli Vigeland

Author, Maintainer

Package Timeline

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

0.4.0Latest
2026-06-25 · current release · diff ↗
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
0.3.0
2023-08-22 · diff ↗
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
0.2.1
2021-03-16
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-03-16
Total releases: 3 / 5 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.2.0
Bundled data: 1.1 KB / 2 files
Download size: 112 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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