CohortContrast

The goal of CohortContrast is to facilitate the comparison between cohorts in specified domains across all OMOP CDM datasets. It enables users to analyze and visualize the contrast between target and control cohorts effectively.

Installation

The development version of the package from GitHub:

# install.packages("devtools")
devtools::install_github("HealthInformaticsUT/CohortContrast")

Usage

For full setup and execution code, use the project documentation:

1. Project wiki (setup + workflow): https://github.com/HealthInformaticsUT/CohortContrast/wiki
2. Package site (reference + vignettes): https://healthinformaticsut.github.io/CohortContrast/

This README intentionally keeps only a concise overview to avoid duplicating setup instructions in multiple places.

Outputs

The CohortContrast package generates the following outputs:

1. Running CohortContrast returns a list of tables (patient level summarised data for target and control) and saves a study folder with parquet files that can be analysed in the GUI directly.
2. Using viewer helpers with runCohortContrastViewer generates plots from parquet-formatted results.
3. Example studies are available under inst/example/st.
4. Published studies can be explored at http://omop-apps.cloud.ut.ee/CohortContrast/.

More information

CohortContrast provides much more insight generation possibilities. See the documentation site for details: https://healthinformaticsut.github.io/CohortContrast/

For feature requests create issues on Github or contact Markus Haug (markus.haug@ut.ee) personally.