R Observatory: Metrics for omopgenerics version 1.4.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

omopgenerics

1.4.2Package record

Methods and Classes for the OMOP Common Data Model

25packages dependsuggested by 1

22.7Kdownloads / year

87.9%test coverage

13/13flavors OK

Overview

About

Maintained by Martí CatalàCRAN page ↗GitHub ↗Website ↗Issues ↗

Provides definitions of core classes and methods used by analytic pipelines that query the OMOP (Observational Medical Outcomes Partnership) common data model.

Changes in 1.4.2

Use read.csv to import codelsits by @edward-burn in #885
Add support for OMOP CDM 5.5 by @catalamarti in #887

From NEWS.md in the release

Install

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

install.packages("omopgenerics", 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("darwin-eu/omopgenerics")

Development version from darwin-eu/omopgenerics. 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-omopgenerics

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-omopgenerics

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-omopgenerics

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: 5.6 min · r-devel-linux-x86_64-debian-clang

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-07
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.4.2

READMEYes · 590 wordsVignettesYes · 8 · dynamicNEWSYes · 100% structured · mentions 1.4.2Citation fileNoWebsiteYes · pkgdown

Help pages: 192 (28 internal)includes a package overview page
Examples that run: 74%73 run in a plain check · 26 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 56%
Documented parameters: 95%
Return-value docs: 90%
Help pages citing references: 0%

Vignettes (8)

How these are measured

Downloads

22.7K

CRAN downloads in the past year

Rank #2,372 · ~62/day · ~1.9K/mo

Releases R versions

Daily download trend is not available in this view yet.

2.7K30 days

7.1K90 days

22.7K1 year

Compare downloads with other packages →

Also on678 r2u2 autocran

How downloads are counted

Repository

darwin-eu/omopgenerics ↗Organization: darwin-eu

0Stars

5Forks

2Open issues

0Open PRs

14Releases

1,073Commits

10Commit identities

License file reads as Apache-2.0 · 1,073 commits · Last activity 2026-09-08

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 21
Median days to close, 50 most recently updated closed PRs: 0

Forks over time

2025-08-01 · 22026-07-09 · 5

How these are measured

PracticesBeta

11 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/darwin-eu/omopgenerics on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-09-08 · The repository has a site deploy workflow

pkgdown site last built 2026-09-08

Coverage (1)

Coverage reporting (Codecov)

Reproducibility and dev environment (1)

data-raw/

Show all practicesHide 2 practices

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

27 external dependencies (excludes base and recommended)

Installing omopgenerics adds 24 packages (12 with compiled code, 19 MB of source tarballs). Heaviest: stringi 11 MB, vctrs 1.0 MB, dplyr 902 KB.

Depends (1)

R >= 4.1

Imports (14)

cli dbplyr dplyr generics glue lifecyclemethodspurrr rlang snakecase stringi stringr tidyr vctrs

LinkingTo (0)

none

Suggests (14)

bit64 CDMConnector covr duckdb gt here jsonlite knitr omock openxlsx readr rmarkdown testthat withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

25direct

1indirect

Imports 25

Suggested by 1

Show all 26 packagesHide all 26 packages

Depends, Imports or LinkingTo, most downloaded first

Suggests, most downloaded first

EpiStandard

How these are counted

Code & Tests

Datasets

People & History

People (6)

Martí Català

Author, Maintainer · added in 0.2.3

Edward Burn

Author

Marta Alcalde-Herraiz

Contributor

Adam Black

Contributor

Mike Du

Contributor

Yuchen Guo

Contributor

Maintainer since 0.0.1 (2024)

Listed in earlier versions (2)

Marti Catala

no longer listed · 0.0.1 to 0.2.2

Nuria Mercade-Besora

no longer listed · 0.2.3

Releases (27)

Pick two releases to compare their code metrics.

1.4.2Latest
record
2026-09-08 · current release · diff ↗
1.4.1
record
2026-07-23 · diff ↗ ·
added 1 export
guessCdmVersion
1.4.0
record
2026-06-17 · diff ↗ ·
added 12 exports
cdmName<-, compareOmopTableFields, emptyCodeSearch, exportCodeSearch, exportCodelistWithDetails, filterResult, importCodeSearch, importCodelistWithDetails, newCodeSearch, newReadOnlySource, resultType, searchStrategy
R
R 4.6.0 released · 2026-04-24
1.3.7
record
2026-03-07 · diff ↗
1.3.6
record
2026-01-28 · diff ↗
1.3.5
record
2025-12-10 · diff ↗
1.3.4
record
2025-12-01 · diff ↗
1.3.3
record
2025-11-11 · diff ↗
1.3.2
record
2025-10-13 · diff ↗
1.3.1
record
2025-09-18 · diff ↗ ·
added 2 exports
emptyConceptSetExpression, omopDataFolder
1.3.0
record
2025-07-15 · diff ↗ ·
added 6 exports
cdmClasses, createIndexes, createTableIndex, existingIndexes, expectedIndexes, statusIndexes
1.2.0
record
2025-05-19 · diff ↗ ·
added 3 exports
createLogFile, logMessage, summariseLogFile
R
R 4.5.0 released · 2025-04-11
1.1.1
record
2025-03-17 · diff ↗
1.1.0
record
2025-02-25 · diff ↗ ·
added 1 export
transformToSummarisedResult

Show 15 earlier eventsHide 15 earlier events

1.0.0
record
2025-02-14 · diff ↗ ·
removed 1 export
validateResultArguemnt

added 10 exports
cdmDisconnect, insertCdmTo, numberRecords, numberSubjects, validateAchillesTable, validateCdmTable, validateColumn, validateNameStyle, validateOmopTable, validateStrataArgument
0.4.1
record
2024-12-05 · diff ↗
0.4.0
record
2024-11-22 · diff ↗ ·
removed 1 export
participants

added 20 exports
addSettings, additionalColumns, filterAdditional, filterGroup, filterSettings, filterStrata, groupColumns, pivotEstimates, settingsColumns, splitAdditional, splitAll, splitGroup, splitStrata, strataColumns, tidy, tidyColumns, uniteAdditional, uniteGroup, uniteStrata, validateNewColumn
0.3.1
record
2024-09-21 · diff ↗ ·
added 6 exports
combineStrata, isResultSuppressed, isTableEmpty, omopTableFields, resultPackageVersion, validateResultArgument
0.3.0
record
2024-08-17 · diff ↗ ·
added 22 exports
assertCharacter, assertChoice, assertClass, assertDate, assertList, assertLogical, assertNumeric, assertTable, assertTrue, exportCodelist, exportConceptSetExpression, importCodelist, importConceptSetExpression, importSummarisedResult, validateAgeGroupArgument, validateCdmArgument, validateCohortArgument, validateCohortIdArgument, validateConceptSetArgument, validateNameArgument, validateResultArguemnt, validateWindowArgument
0.2.3
record
2024-07-03 · diff ↗ ·
added 2 exports
emptyCodelistWithDetails, newCodelistWithDetails
0.2.2
record
2024-06-19 · diff ↗ ·
added 2 exports
getPersonIdentifier, uniqueId
0.2.1
record
2024-05-17 · diff ↗
0.2.0
record
2024-04-30 · diff ↗ ·
added 6 exports
cdmSelect, emptyCodelist, exportSummarisedResult, getCohortId, getCohortName, toSnakeCase
R
R 4.4.0 released · 2024-04-24
0.1.2
record
2024-03-10 · diff ↗ ·
removed 2 exports
emptyComparedResult, newComparedResult

added 9 exports
cdmSourceType, cdmTableFromSource, checkCohortRequirements, cohortCodelist, dropSourceTable, listSourceTables, newLocalSource, readSourceTable, validateNameLevel
0.0.3
record
2024-02-23 · diff ↗ ·
added 9 exports
cdmSource, emptyAchillesTable, emptyCdmReference, emptyCohortTable, emptyOmopTable, sourceType, tableName, tableSource, tmpPrefix
0.0.2
record
2024-01-30 · diff ↗ ·
removed 11 exports
achillesTable, cdmSource, cdmTable, codelist, cohortTable, comparedResult, conceptSetExpression, omopTable, splitGroup, summarisedResult, uniteGroup

added 13 exports
emptyComparedResult, emptySummarisedResult, estimateTypeChoices, newAchillesTable, newCdmReference, newCdmSource, newCdmTable, newCodelist, newCohortTable, newComparedResult, newConceptSetExpression, newOmopTable, newSummarisedResult
0.0.1
record
2024-01-17
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2024-01-17
Total releases: 27 / 2 yrs
License: Apache License (>= 2)
Minimum R: ≥ 4.1
Bundled data: 0.1 KB / 1 file
Download size: 278 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("omopgenerics")

Format

Català, M., Alcalde-Herraiz, M., Black, A., Burn, E., Du, M., & Guo, Y. (2026). omopgenerics: Methods and Classes for the OMOP Common Data Model (Version 1.4.2) [Computer software]. https://doi.org/10.32614/CRAN.package.omopgenerics

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 omopgenerics version 1.4.2 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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