Package: SelfControlledCohort 2.0.0

Jamie Gilbert

SelfControlledCohort: Self-Controlled Cohort Population-Level Estimation

Estimates incidence rate ratios by comparing time exposed with time unexposed among an exposed cohort using self-controlled cohort methodology as described in Ryan et al. (2013) <doi:10.1002/pds.3457>. Functions used for empirical calibration of effect estimates, confidence intervals, and p-values are included to control for residual bias.

Authors:Jamie Gilbert [cre, aut], Martijn Schuemie [aut], Patrick Ryan [aut], Observational Health Data Science and Informatics [cph]

SelfControlledCohort_2.0.0.tar.gz
SelfControlledCohort_2.0.0.tar.gz(r-4.7-any)SelfControlledCohort_2.0.0.tar.gz(r-4.6-any)
SelfControlledCohort_2.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SelfControlledCohort/json (API)
NEWS

# Install 'SelfControlledCohort' in R:

install.packages('SelfControlledCohort', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ohdsi/selfcontrolledcohort/issues

Pkgdown/docs site:https://ohdsi.github.io

Uses libs:

openjdk– OpenJDK Java runtime, using Hotspot JIT

On CRAN:

openjdk

3.36 score 23 scripts 26 exports 69 dependencies

Last updated from:92b4ff7d11. Checks:4 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	212
source / vignettes	OK	351
linux-release-x86_64	OK	192
wasm-release	OK	153

Exports:computeEase computeMdrrForRateRatio createExposureOutcome createResultsDataModel createRunSelfControlledCohortArgs createSccAnalysis createSelfControlledCohortModuleSpecifications execute getDataMigrator getDefaultDiagnosticThresholds getDefaultExportManager getDiagnosticsSummary getModuleInfo getResultsDataModelSpecifications getResultsFolders getSccRiskWindowStats loadExposureOutcomeList loadSccAnalysisList migrateDataModel runSccAnalyses runSccDiagnostics runSccRiskWindows runSelfControlledCohort saveExposureOutcomeList saveSccAnalysisList uploadResults

Dependencies:Andromeda backports bit bit64 blob checkmate cli clipr cpp11 crayon DatabaseConnector DBI dbplyr digest dplyr duckdb EmpiricalCalibration farver fastmap generics ggplot2 glue gridExtra gtable hms isoband jsonlite labeling later lifecycle lubridate magrittr memuse ParallelLogger pillar pkgconfig pool prettyunits progress purrr R6 rateratio.test RColorBrewer Rcpp readr ResultModelManager rJava rlang rstudioapi S7 scales snow SqlRender stringi stringr tibble tidyr tidyselect timechange triebeard tzdb urltools utf8 vctrs viridisLite vroom withr xml2 zip

Study Diagnostics

Rendered fromStudyDiagnostics.Rmdusingknitr::rmarkdownon Jun 17 2026.

Last update: 2026-06-17
Started: 2026-06-17

Using SelfControlledCohort

Rendered fromUsingSelfControlledCohort.Rmdusingknitr::rmarkdownon Jun 17 2026.

Last update: 2026-06-17
Started: 2026-06-17

Citation

Readme and manuals

Help Manual

Help page	Topics
Compute Expected Absolute Systematic Error (EASE)	computeEase
Compute Minimum Detectable Relative Risk (MDRR) for rate ratio	computeMdrrForRateRatio
Create exposure-outcome combinations.	createExposureOutcome
Create the results data model tables on a database server.	createResultsDataModel
Create a parameter object for the function runSelfControlledCohort	createRunSelfControlledCohortArgs
Create a SelfControlledCohort analysis specification	createSccAnalysis
Create Self-Controlled Cohort Module Specifications	createSelfControlledCohortModuleSpecifications
Execute Self-Controlled Cohort Analyses for Strategus	execute
Get database migrations instance	getDataMigrator
Get default diagnostic thresholds	getDefaultDiagnosticThresholds
Get Default export manager	getDefaultExportManager
Get diagnostics summary	getDiagnosticsSummary
Get module information	getModuleInfo
Get specifications for CohortMethod results data model	getResultsDataModelSpecifications
Get results folders for an analysis specification	getResultsFolders
Get Self-Controlled Cohort Risk Window Statistics	getSccRiskWindowStats
Load a list of exposureOutcome from file	loadExposureOutcomeList
Load a list of sccAnalysis from file	loadSccAnalysisList
Migrate Data model	migrateDataModel
Run a list of analyses	runSccAnalyses
Run Self-Controlled Cohort Diagnostics	runSccDiagnostics
Run Self-Controlled Cohort Risk Windows	runSccRiskWindows
Run self-controlled cohort	runSelfControlledCohort
Save a list of exposureOutcome to file	saveExposureOutcomeList
Save a list of sccAnalysis to file	saveSccAnalysisList
Upload results to the database server.	uploadResults