R Observatory: Metrics for easyPubMed version 3.1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

easyPubMed

3.1.6Package record

Search and Retrieve Scientific Publication Records from PubMed

1packages depend

11.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Damiano FantiniCRAN page ↗Website ↗

Query NCBI Entrez and retrieve PubMed records in XML or text format. Process PubMed records by extracting and aggregating data from selected fields. A large number of records can be easily downloaded via this simple-to-use interface to the NCBI PubMed API.

Install

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

install.packages("easyPubMed", 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-easypubmed

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-easyPubMed

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-easyPubMed

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 4.2 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 3.1.6

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsiteYes

Help pages: 60 (24 internal)includes a package overview page
Examples that run: 98%40 run in a plain check · 1 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 65%

Vignettes (1)

easyPubMed demo

How these are measured

Downloads

11.4K

CRAN downloads in the past year

Rank #4,946 · ~31/day · ~948/mo

Releases R versions

Daily download trend is not available in this view yet.

65130 days

1.7K90 days

11.4K1 year

Compare downloads with other packages →

Also on101 r2u8 autocran1.6K conda_forge

How downloads are counted

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing easyPubMed adds 1 package (1 with compiled code, 766 KB of source tarballs). Heaviest: rlang 766 KB.

Depends (1)

R >= 3.5

Imports (3)

methodsutilsrlang

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

PubMedMining

How these are counted

Code & Tests

Datasets

People & History

People (1)

Damiano Fantini

Author, Maintainer since 1.3 (2016)

Releases (9)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
3.1.6Latest
record
2025-08-25 · current release · diff ↗ ·
removed 6 exports
article_to_df, articles_to_list, batch_pubmed_download, fetch_all_pubmed_ids, get_pubmed_ids_by_fulltitle, trim_address

added 11 exports
epm_fetch, epm_import_xml, epm_parse, epm_parse_record, epm_query, epm_query_by_fulltitle, epm_query_by_pmid, get_epm_data, get_epm_meta, get_epm_raw, get_epm_uilist
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
R
R 3.6.0 released · 2019-04-26
2.13
record
2019-03-29 · diff ↗ ·
removed 1 export
pattern:^[[:alpha:]]+

added 10 exports
article_to_df, articles_to_list, batch_pubmed_download, custom_grep, fetch_all_pubmed_ids, fetch_pubmed_data, get_pubmed_ids, get_pubmed_ids_by_fulltitle, table_articles_byAuth, trim_address
2.12
record
2019-03-06 · diff ↗
2.11
record
2019-01-23 · diff ↗
2.5
record
2018-05-05 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
2.3
record
2017-02-27 · diff ↗

Show 5 earlier eventsHide 5 earlier events

1.7
record
2016-11-25 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.5
record
2016-02-26 · diff ↗
1.3
record
2016-01-06
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2016-01-06
Total releases: 9 / 10 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5
Bundled data: 34 KB / 2 files
Download size: 496 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("easyPubMed")

Format

Fantini, D. (2025). easyPubMed: Search and Retrieve Scientific Publication Records from PubMed (Version 3.1.6) [Computer software]. https://doi.org/10.32614/CRAN.package.easyPubMed

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 easyPubMed version 3.1.6 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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