README.md

SelfControlledCohort

Introduction

This package provides a method to estimate risk by comparing time exposed with time unexposed among the exposed cohort.

Features

• Extracts the necessary data from a database in OMOP Common Data Model format.
• Supports stratification by age, gender, and index year.

Example

library(SelfControlledCohort)

connectionDetails <- createConnectionDetails(dbms = "postgresql",
                                             user = "joe",
                                             password = "secret",
                                             server = "myserver")
                                             
sccResults <- runSelfControlledCohort(connectionDetails,
                                     cdmDatabaseSchema = "cdm_data",
                                     exposureIds = c(767410, 1314924, 907879),
                                     outcomeIds = 444382,
                                     outcomeTable = "condition_era")

summary(sccResults)

Technology

SelfControlledCohort is an R package.

System Requirements

Requires R. Libraries used in SelfControlledCohort require Java.

Dependencies

• DatabaseConnector
• SqlRender
• OhdsiRTools

Getting Started

1. The DatabaseConnector and SqlRender packages require Java. Java can be downloaded from http://www.java.com.
2. In R, use the following commands to download and install CohortMethod:

install.packages("devtools")
library(devtools)
install_github("ohdsi/OhdsiRTools") 
install_github("ohdsi/SqlRender")
install_github("ohdsi/DatabaseConnector")
install_github("ohdsi/SelfControlledCohort")

Getting Involved

• Package manual: SelfControlledCohort.pdf
• Developer questions/comments/feedback: OHDSI Forum
• We use the GitHub issue tracker for all bugs/issues/enhancements

License

SelfControlledCohort is licensed under Apache License 2.0

Development

SelfControlledCohort is being developed in R Studio.

Development status

Beta