PatientLevelPrediction

6.6.0

Develop Clinical Prediction Models Using the Common Data Model

0packages depend

11.1Kdownloads / year

88.2%test coverage

13/13checks pass

Overview

About

Maintained by Egill FridgeirssonFirst published 2025-02-115 releasesCRAN page ↗GitHub ↗

A user friendly way to create patient level prediction models using the Observational Medical Outcomes Partnership Common Data Model. Given a cohort of interest and an outcome of interest, the package can use data in the Common Data Model to build a large set of features. These features can then be used to fit a predictive model with a number of machine learning algorithms. This is further described in Reps (2017) doi:10.1093/jamia/ocy032.

Install

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

install.packages("PatientLevelPrediction", 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("OHDSI/PatientLevelPrediction")

Development version from OHDSI/PatientLevelPrediction. 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-patientlevelprediction

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-PatientLevelPrediction

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

Slowest check: 12.4 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.40

88.2%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
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

Show 4 earlier snapshots

ERROR2026-05-13
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-06
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-04
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 774 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 85%
Documented parameters: 95%
Return-value docs: 98%
References docs: 0%

Downloads

11.1K

CRAN downloads in the past year

Rank #9,875 · ~30/day · ~921/mo

Releases R versions

Daily download trend is not available in this view yet.

32530 days

1.1K90 days

11.1K1 year

Compare downloads with other packages →

Also on153 r2u

Repository

GitHub ↗ ohdsi/patientlevelprediction

219Stars

94Forks

46Open issues

3Open PRs

31Releases

1,845Commits

29Contributors

hades

1,845 commits · Last activity 2026-06-19 · +1.4% stars, 30d

Stars over time

2025-07-12 · 1972026-07-07 · 219

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/ohdsi/patientlevelprediction on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

Dockerfile

Lint, format, editor (1)

RStudio project

Governance and community (1)

Issue templates

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Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

36 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (15)

Andromeda Cyclops DatabaseConnector digest dplyr FeatureExtractionMatrixmemuse ParallelLogger pROC PRROC rlang SqlRender (>= 1.1.3)tidyrutils

LinkingTo (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (7)

Maintainer (1)

Egill Fridgeirsson

Author, Maintainer

Authors (6)

Author, Maintainer

Author

Author

Author

Author

Author

Observational Health Data Science and Informatics

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
6.6.0Latest
2026-03-09 · current release · diff ↗
6.5.1
2025-10-15 · diff ↗
6.5.0
2025-07-25 · diff ↗
6.4.1
2025-04-20 · diff ↗
R
R 4.5.0 released · 2025-04-11
6.4.0
2025-02-11
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-02-11
Total releases: 5 / 1 yrs
License: Apache License 2.0 OSI
Minimum R: ≥ 4.0.0
Bundled data: 3.8 KB / 1 file
Download size: 3.0 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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