PatientGenerator

0.1.4

Generator of Synthetic Patient Data for the OMOP Common Data Model

0packages depend

621downloads / year

29.0%test coverage

13/13checks pass

Overview

About

Maintained by Cesar BarbozaFirst published 2026-05-051 releasesCRAN page ↗GitHub ↗

Tools to generate synthetic patient-level test datasets in the Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM). Includes a chat-driven generator backed by large language models and an interactive 'shiny' designer for editing CDM test sets.

Install

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

install.packages("PatientGenerator", 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("mi-erasmusmc/PatientGenerator")

Development version from mi-erasmusmc/PatientGenerator. 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-patientgenerator

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-PatientGenerator

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-PatientGenerator

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

Health

CRAN checks

13OK

Slowest check: 2.1 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 2.11

29.0%

Coverage · measured lines

90%

Documentation · exports

Dependencies · direct

Check history

OK2026-05-24
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-17
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-15
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-13
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-05
6 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 397 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 0%
Documented parameters: 100%
Return-value docs: 88%
References docs: 0%

Downloads

621

CRAN downloads in the past year

Rank #19,319 · ~2/day · ~52/mo

Releases R versions

Daily download trend is not available in this view yet.

17330 days

62190 days

6211 year

Compare downloads with other packages →

Also on14 r2u6 autocran

Repository

GitHub ↗ mi-erasmusmc/patientgenerator

3Stars

1Forks

14Open issues

2Open PRs

2Releases

88Commits

3Contributors

License Apache-2.0 · 88 commits · Last activity 2026-07-21 · 0% stars, 30d

Stars over time

2026-04-16 · 12026-07-07 · 3

Repository practices

Upstream repositoryBeta

6 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/mi-erasmusmc/patientgenerator on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

renv

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Docs source (1)

README.Rmd

Show all practices

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

24 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (16)

bslib checkmate data.table DBI dplyr DT duckdb ellmer glue httr2 jsonlite r2d3 R6 shiny stringr testthat

LinkingTo (0)

none

Suggests (8)

CDMConnector CohortCharacteristics CohortConstructor covr ggplot2 knitr rmarkdown TestGenerator

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

JSON 4,635 (52%)R 3,865 (43%)Rd 404 (5%)Vignettes 72 (1%)

Code characteristics

Object systems

R64

Cyclomatic complexity: 2.0 median / 33 max
Test cases: 24 / 2.11 per code line

Test coverage

Line coverage

29%

Expression

29.8%

Tests / Examples

29.0% / 0% ex

Functions

31 9 exported

Complexity

4.1 avg / 33 max

Call network

31 nodes / 30 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

31 functions

Function	Cyclo	Coverage
%\|\|% exp	2	0%
availableModels exp	1	0%
conceptSearchUI exp	1	0%
hecateClient exp	5	0%
hecateSearch exp	33	0%
patientDesigner exp	2	0%

People & History

People (3)

Maintainer (1)

Cesar Barboza

Author, Maintainer

Authors (3)

Cesar Barboza

Author, Maintainer

Adam Black

Author

Ger Inberg

Author

Package Timeline

1 release. R releases are shown for context.

0.1.4Latest
2026-05-05 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-05-05
Total releases: 1 / 1 yrs
License: Apache License (>= 2)
Minimum R: ≥ 4.1.0
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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