lineup

0.46

Lining Up Two Sets of Measurements

0packages depend

3.9Kdownloads / year

25.1%test coverage

13/13checks pass

Overview

About

Maintained by Karl W BromanFirst published 2012-10-159 releasesCRAN page ↗GitHub ↗

Tools for detecting and correcting sample mix-ups between two sets of measurements, such as between gene expression data on two tissues. Broman et al. (2015) doi:10.1534/g3.115.019778.

Install

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

install.packages("lineup", 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("kbroman/lineup")

Development version from kbroman/lineup. 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-lineup

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-lineup

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-lineup

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

Health

CRAN checks

13OK

Slowest check: 2.4 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.05

25.1%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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

Documentation

READMEYes · 235 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

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

Downloads

3.9K

CRAN downloads in the past year

Rank #11,909 · ~11/day · ~326/mo

Releases R versions

Daily download trend is not available in this view yet.

32430 days

86390 days

3.9K1 year

Compare downloads with other packages →

Also on465 r2u38 autocran31 c2d4u

Repository

GitHub ↗ kbroman/lineup

4Stars

3Forks

0Open issues

0Open PRs

5Releases

266Commits

1Contributors

License GPL-3.0 · 266 commits · Last activity 2026-07-15

Stars over time

2022-07-11 · 42026-07-07 · 4

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/kbroman/lineup on 2026-07-30.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

Makefile

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10.1

Imports (7)

qtlclassgraphicsgrDevicesutilsstatsparallel

LinkingTo (0)

none

Suggests (5)

roxygen2 knitr rmarkdown devtools testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Karl W Broman

Author, Maintainer

Authors (1)

Karl W Broman

Author, Maintainer

Package Timeline

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

0.46Latest
2026-07-15 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.44
2024-07-15 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.42
2022-07-10 · diff ↗
R
R 4.2.0 released · 2022-04-22
0.40
2021-11-03 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.38-3
2020-11-17 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
0.37-11
2019-03-06 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.37-10
2018-03-23 · diff ↗

Show 8 earlier events

R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
0.37-6
2015-07-29 · diff ↗
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
0.34-1
2012-10-15
R
R 2.15.0 released · 2012-03-30

Package metadata

First published: 2012-10-15
Total releases: 9 / 14 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10.1
Bundled data: 1.5 MB / 5 files
Download size: 1.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

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