R Observatory: Metrics for CohortMethod version 6.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CohortMethod

6.0.3Package record

Comparative Cohort Method with Large Scale Propensity and Outcome Models

0packages depend

3.9Kdownloads / year

93.5%test coverage

13/13flavors OK

Overview

About

Maintained by Martijn SchuemieCRAN page ↗GitHub ↗Website ↗Issues ↗

Functions for performing comparative cohort studies in an observational database in the Observational Medical Outcomes Partnership (OMOP) Common Data Model. Can extract all necessary data from a database. This implements large-scale propensity scores (LSPS) as described in Tian et al. (2018) doi:10.1093/ije/dyy120, using a large set of covariates, including for example all drugs, diagnoses, procedures, as well as age, comorbidity indexes, etc. Large scale regularized regression is used to fit the propensity and outcome models as described in Suchard et al. (2013) doi:10.1145/2414416.2414791. Functions are included for trimming, stratifying, (variable and fixed ratio) matching and weighting by propensity scores, as well as diagnostic functions, such as propensity score distribution plots and plots showing covariate balance before and after matching and/or trimming. Supported outcome models are (conditional) logistic regression, (conditional) Poisson regression, and (stratified) Cox regression. Also included are Kaplan-Meier plots that can adjust for the stratification or matching.

Changes in 6.0.3

Bugfixes:

1. Fixed error caused by dbplyr 2.6.0 caused sum the variable to be confused with sum the function.

From NEWS.md in the release

Install

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

install.packages("CohortMethod", 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/CohortMethod")

Development version from OHDSI/CohortMethod. 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-cohortmethod

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-CohortMethod

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-CohortMethod

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: 15.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-10-18
ERROR11 OK, 2 ERROR2026-10-09
OK13 OK2026-09-29
ERROR12 OK, 1 ERROR2026-09-04
OK13 OK2026-08-22

Show 16 earlier changesHide 16 earlier changes

ERROR12 OK, 1 ERROR2026-08-20
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-27
ERROR12 OK, 1 ERROR2026-06-19
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-24
ERROR12 OK, 1 ERROR2026-05-17
OK13 OK2026-05-15
ERROR12 OK, 1 ERROR2026-05-13
OK14 OK2026-04-22
ERROR13 OK, 1 ERROR2026-04-18
OK14 OK2026-04-06
ERROR13 OK, 1 ERROR2026-04-04
OK6 OK2026-03-22

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 6.0.3

READMEYes · 372 wordsVignettesYes · 3 · dynamicNEWSYes · 33% structured · mentions 6.0.3Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 69 (1 internal)includes a package overview page
Examples that run: 100%8 run in a plain check
Exported functions with examples: 12%
Documented parameters: 98%
Return-value docs: 88%
Help pages citing references: 16%

Vignettes (3)

How these are measured

Downloads

3.9K

CRAN downloads in the past year

Rank #5,139 · ~11/day · ~323/mo

Releases R versions

Daily download trend is not available in this view yet.

66330 days

1.6K90 days

3.9K1 year

Compare downloads with other packages →

Also on318 r2u9 autocran

How downloads are counted

Repository

ohdsi/cohortmethod ↗Organization: OHDSI

92Stars

69Forks

16Open issues

2Open PRs

18Releases

1,110Commits

27Commit identities

hades

1,110 commits · Last activity 2026-06-22 · +3.4% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 68%
Median days to close, 50 most recently updated closed issues: 246
Median days to close, 50 most recently updated closed PRs: 1

Stars over time

2025-09-09 · 862026-09-28 · 92

How these are measured

PracticesBeta

10 development-tooling and community-health practices detected across 7 families in the upstream repository

Checks run against github.com/ohdsi/cohortmethod on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows

Governance and community (1)

PR template

Docs source (2)

pkgdown

GitHub Pages site last deployed 2026-06-22

pkgdown site last built 2026-06-19, before release 6.0.3 (2026-06-22)

Coverage (1)

Coverage reporting

Show all practicesHide 3 practices

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

Git structural (1)

.gitattributes

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

AI coding toolsBeta

An outside contributor's pull request to this repository was written with an AI coding tool.

From outside contributors

Claude Code
Pull requests: 1 from outside contributors, first on 2026-09-14, 1 from forks

How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

31 external dependencies (excludes base and recommended)

Installing CohortMethod adds 70 packages (39 with compiled code, 54 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, duckdb 4.6 MB.

Depends (5)

R >= 4.1.0DatabaseConnector Cyclops (>= 3.6.0)FeatureExtraction Andromeda

Imports (18)

methodsutilsggplot2 gridExtragridreadr plyr dplyr rlang Rcpp SqlRendersurvivalParallelLogger checkmate EmpiricalCalibration jsonlite R6 digest

LinkingTo (1)

Rcpp

Suggests (12)

testthat pROC knitr rmarkdown Eunomia zip withr R.utils RSQLite ResultModelManager markdown PSweight

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Martijn Schuemie

Author, Maintainer since 6.0.1 (2026)

Patrick Ryan

Author

Marc Suchard

Author

Releases (3)

Pick two releases to compare their code metrics.

6.0.3Latest
record
2026-06-22 · current release · diff ↗
6.0.2
record
2026-05-08 · diff ↗
R
R 4.6.0 released · 2026-04-24
6.0.1
record
2026-03-21
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-03-21
Total releases: 3 / 1 yrs
License: Apache License 2.0 OSI
Minimum R: ≥ 4.1.0
Bundled data: 265 KB / 1 file
Download size: 1.3 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("CohortMethod")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.3233/shti231108.

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 CohortMethod version 6.0.3 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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