rentrez

1.2.4

'Entrez' in R

22packages depend

457Kdownloads / year

59.2%test coverage

13/13checks pass

Overview

About

Maintained by David WinterFirst published 2013-08-2019 releasesCRAN page ↗GitHub ↗

Provides an R interface to the NCBI's 'EUtils' API, allowing users to search databases like 'GenBank' https://www.ncbi.nlm.nih.gov/genbank/ and 'PubMed' https://pubmed.ncbi.nlm.nih.gov/, process the results of those searches and pull data into their R sessions.

Install

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

install.packages("rentrez", 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("ropensci/rentrez")

Development version from ropensci/rentrez. 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-rentrez

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-rentrez

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-rentrez

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

Health

CRAN checks

13OK

Slowest check: 1.6 min · r-release-windows-x86_64

Code health

Yes

Tests · ratio 0.43

59.2%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

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

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 8%
Documented parameters: 99%
Return-value docs: 94%
References docs: 29%

Downloads

457K

CRAN downloads in the past year

Rank #597 · ~1.3K/day · ~38.1K/mo

Releases R versions

Daily download trend is not available in this view yet.

34.9K30 days

116.6K90 days

457K1 year

Compare downloads with other packages →

Also on2.5K r2u94 autocran11.1K conda_forge122 bioconda50 c2d4u

Repository

GitHub ↗ ropensci/rentrez

219Stars

41Forks

47Open issues

7Open PRs

8Releases

473Commits

14Contributors

rrstatsr-package

473 commits · Last activity 2026-07-20 · +0.9% stars, 30d

Stars over time

2025-06-19 · 2032026-07-07 · 218

Repository practices

Upstream repositoryBeta

4 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/ropensci/rentrez on 2026-07-19.

Continuous integration (2)

Travis CIAppVeyor

Docs source (1)

README.Rmd

Governance and community (1)

Issue templates

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.6.0

Imports (3)

XML httr jsonlite

LinkingTo (0)

none

Suggests (3)

testthat knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

22direct

9indirect

Map2NCBI DeSciDe LBDiscover MACER ORscraper biolink covid19.analytics fanyi geneHummus pubmedR puremoe read.gb refdb refseqR restez rotl vDiveR BoSSA PACVr idiogramFISH openalexR searchAnalyzeR

Code & Tests

People & History

People (3)

Maintainer (1)

David Winter

Author, Maintainer

Authors (1)

David Winter

Author, Maintainer

Contributors (2)

Scott Chamberlain

Contributor · added in 0.3

Han Guangchun

Contributor · added in 1.0.0

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.2.4Latest
2025-06-11 · current release · diff ↗
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
1.2.3
2020-11-10 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.2.2
2019-05-02 · diff ↗
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
1.2.1
2018-03-05 · diff ↗
1.2.0
2018-02-12 · diff ↗
1.1.0
2017-06-01 · diff ↗
R
R 3.4.0 released · 2017-04-21

Show 19 earlier events

1.0.4
2016-10-26 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.0.2
2016-04-21 · diff ↗
1.0.1
2016-02-29 · diff ↗
1.0.0
2015-09-23 · diff ↗
0.4.2
2015-06-26 · diff ↗
R
R 3.2.0 released · 2015-04-16
0.4.1
2015-03-03 · diff ↗
0.4
2015-02-09 · diff ↗
0.3.1
2014-09-24 · diff ↗
0.3
2014-09-23 · diff ↗
0.2.4
2014-05-15 · diff ↗
R
R 3.1.0 released · 2014-04-10
0.2.3
2014-03-05 · diff ↗
0.1.1
2013-08-20 · diff ↗
R
R 3.0.0 released · 2013-04-03
R
R 2.15.0 released · 2012-03-30
2.14.1
2011-11-22
R
R 2.14.0 released · 2011-10-31

Package metadata

First published: 2013-08-20
Total releases: 19 / 13 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 2.6.0
Download size: 66 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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