R Observatory: Metrics for UpSetR version 1.4.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

UpSetR

1.4.1

A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets

19packages depend

383.2Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Nils GehlenborgFirst published 2015-07-1619 releasesCRAN page ↗GitHub ↗

Creates visualizations of intersecting sets using a novel matrix design, along with visualizations of several common set, element and attribute related tasks (Conway 2017) doi:10.1093/bioinformatics/btx364.

Install

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

install.packages("UpSetR", 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("hms-dbmi/UpSetR")

Development version from hms-dbmi/UpSetR. 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-upsetr

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-UpSetR

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-UpSetR

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

Health

CRAN checks

13OK

Slowest check: 2.7 min · r-oldrel-macos-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

8

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 404 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 0%
References docs: 14%

Downloads

383.2K

CRAN downloads in the past year

Rank #622 · ~1.1K/day · ~31.9K/mo

Releases R versions

Daily download trend is not available in this view yet.

27.3K30 days

98.9K90 days

383.2K1 year

Compare downloads with other packages →

Also on6.2K r2u16 autocran21.3K conda_forge347 bioconda111 c2d4u

Repository

GitHub ↗ hms-dbmi/upsetr

839Stars

164Forks

127Open issues

23Open PRs

21Releases

370Commits

14Contributors

upsetupsetrvisualizationrstatsggplot2hidivelab

370 commits · Last activity 2026-05-20 · +0.2% stars, 30d

Stars over time

2025-08-06 · 8022026-08-07 · 839

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/hms-dbmi/upsetr on 2026-08-09.

Continuous integration (1)

Travis CI

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0

Imports (8)

ggplot2 gridExtra plyrutilsstatsmethodsgrDevicesscales

LinkingTo (0)

none

Suggests (1)

knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

19direct

9indirect

CiteSource MetaHD PTXQC QCAcluster biblioverlap inDAGO mpwR naniar plinkQC rimu OmicNavigator fastml fuseMLR ggpicrust2 immunarch miceFast omicsTools pcutils pepdiff

Code & Tests

People & History

People (2)

Maintainer (1)

Nils Gehlenborg

Author, Maintainer · added in 0.0.5

Authors (2)

Nils Gehlenborg

Author, Maintainer · added in 0.0.5

Jake Conway

Author · added in 0.0.5

Package Timeline

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

1.4.1Latest
2026-05-25 · 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
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
1.4.0
2019-05-23 · diff ↗
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.3.3
2017-03-21 · diff ↗
1.3.2
2017-01-04 · diff ↗
1.3.1
2016-11-10 · diff ↗
1.3.0
2016-10-19 · diff ↗

Show 15 earlier events

1.2.4
2016-09-02 · diff ↗
1.2.3
2016-08-02 · diff ↗
1.2.2
2016-06-24 · diff ↗
1.2.1
2016-06-01 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.2.0
2016-04-08 · diff ↗
1.1.1
2016-02-29 · diff ↗
1.1.0
2016-02-22 · diff ↗
1.0.3
2016-01-30 · diff ↗
1.0.2
2015-12-18 · diff ↗
1.0.1
2015-12-17 · diff ↗
1.0.0
2015-10-19 · diff ↗
0.0.5
2015-07-29 · diff ↗
0.0.4
2015-07-16
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-07-16
Total releases: 19 / 11 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.0
Download size: 4.0 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("UpSetR")

Format

Gehlenborg, N., & Conway, J. (2026). UpSetR: A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets (Version 1.4.1) [Computer software]. https://doi.org/10.32614/CRAN.package.UpSetR

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for UpSetR version 1.4.1 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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