R Observatory: Metrics for clinUtils version 0.2.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

clinUtils

0.2.2Package record

General Utility Functions for Analysis of Clinical Data

3packages depend

5.9Kdownloads / year

99.5%test coverage

10/13flavors OK

Overview

About

Maintained by Laure CougnaudCRAN page ↗GitHub ↗Issues ↗

Utility functions to facilitate the import, the reporting and analysis of clinical data. Example datasets in 'SDTM' and 'ADaM' format, containing a subset of patients/domains from the 'CDISC Pilot 01 study' are also available as R datasets to demonstrate the package functionalities.

Changes in 0.2.2

tests: fix expect -> expect_equal (testthat >= 3.0.0)

From inst/NEWS in the release

Install

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

install.packages("clinUtils", 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("openanalytics/clinUtils")

Development version from openanalytics/clinUtils. 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-clinutils

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-clinUtils

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-clinUtils

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

1ERROR2NOTE10OK

Check messages

ERRORre-building of vignette outputsr-release-macos-arm64

Error(s) in re-building vignettes:
--- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown

Quitting from clinUtils-vignette.Rmd:441-448 [figure-interactive-creation]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_download()`:
! Timeout was reached [cdn.plot.ly]:
Resolving timed out after 10004 milliseconds
---
Backtrace:
     ▆
  1. ├─base::sapply(...)
  2. │ └─base::lapply(X = X, FUN = FUN, ...)
  3. │   └─global FUN(X[[i]], ...)
  4. │     └─ggplotly(ggplot) %>% partial_bundle()
  5. ├─plotly::partial_bundle(.)
  6. │ ├─plotly::plotly_build(p)
  7. │ └─plotly:::plotly_build.plotly(p)
  8. │   └─plotly:::verify_partial_bundle(p)
  9. │     └─curl::curl_download(...)
 10. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'clinUtils-vignette.Rmd' failed with diagnostics:
Timeout was reached [cdn.plot.ly]:
Resolving timed out after 10004 milliseconds
--- failed re-building ‘clinUtils-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘clinUtils-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted

NOTERd contentsr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Rd files without \usage:
  ‘clinUtils-palette.Rd’ ‘comparisonTables-common-args.Rd’
\arguments should not be documented without \usage.

CRAN check page ↗

Slowest check: 2.6 min · r-oldrel-windows-x86_64

Status changes

ERROR10 OK, 2 NOTE, 1 ERRORNow
ERROR10 OK, 3 NOTE, 1 ERROR2026-03-30
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.2

READMENoVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 0.2.2Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 42
Examples that run: 81%13 run in a plain check · 3 never run
Exported functions with examples: 53%
Documented parameters: 95%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Introduction to the `clinUtils` package

How these are measured

Downloads

5.9K

CRAN downloads in the past year

Rank #5,848 · ~16/day · ~493/mo

Releases R versions

Daily download trend is not available in this view yet.

63030 days

1.4K90 days

5.9K1 year

Compare downloads with other packages →

Also on227 r2u17 autocran

How downloads are counted

Repository

openanalytics/clinutils ↗Organization: openanalytics

3Stars

3Forks

0Open issues

0Open PRs

0Releases

145Commits

5Commit identities

145 commits · Last activity 2025-12-04 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 48

Stars over time

2023-06-14 · 22026-07-07 · 3

How these are measured

PracticesBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/openanalytics/clinutils on 2026-10-11.

Reproducibility and dev environment (1)

Dockerfile

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

16 external dependencies (excludes base and recommended)

Installing clinUtils adds 58 packages (31 with compiled code, 39 MB of source tarballs). Heaviest: data.table 5.7 MB, bslib 5.6 MB, promises 3.1 MB.

Depends (0)

none

Imports (10)

crosstalk data.table DT haven htmlwidgets knitr plyrtoolsutilsviridisLite

LinkingTo (0)

none

Suggests (8)

tibble ggplot2 plotly htmltools pander rmarkdown testthat flextable

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

3direct

0indirect

Imports 3

Depends, Imports or LinkingTo, most downloaded first

clinDataReview patientProfilesVis inTextSummaryTable

How these are counted

Code & Tests

Datasets

People & History

People (4)

Laure Cougnaud

Author, Maintainer since 0.0.4 (2021)

Michela Pasetto

Author

Open Analytics

Copyright holder · added in 0.0.2

Arne De Roeck

Reviewer · added in 0.1.0

tests

Previously maintained by Michela Pasetto (0.0.1 to 0.0.3).

Releases (12)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.2.2Latest
record
2025-12-04 · current release · diff ↗
0.2.1
record
2025-09-03 · diff ↗
R
R 4.5.0 released · 2025-04-11
0.2.0
record
2024-05-17 · diff ↗
R
R 4.4.0 released · 2024-04-24
0.1.5
record
2024-04-23 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.1.4
record
2023-01-06 · diff ↗
0.1.3
record
2022-10-24 · diff ↗
R
R 4.2.0 released · 2022-04-22
0.1.1
record
2022-02-22 · diff ↗
0.1.0
record
2021-09-22 · diff ↗ ·
added 1 export
getClinDTButtons
0.0.4
record
2021-07-21 · diff ↗
0.0.3
record
2021-07-16 · diff ↗
0.0.2
record
2021-07-14 · diff ↗

Show 2 earlier eventsHide 2 earlier events

0.0.1
record
2021-06-08
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-06-08
Total releases: 12 / 5 yrs
License: MIT + file LICENSE OSI
Bundled data: 142 KB / 4 files
Download size: 2.6 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("clinUtils")

Format

Cougnaud, L., Open Analytics, De Roeck, A., & Pasetto, M. (2025). clinUtils: General Utility Functions for Analysis of Clinical Data (Version 0.2.2) [Computer software]. https://doi.org/10.32614/CRAN.package.clinUtils

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 clinUtils version 0.2.2 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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