CohortDiagnostics is part of HADES.

Introduction

This is an R package for performing various study diagnostics, many of which are not specific to any particular study design.

Features

  • Show cohort inclusion rule attrition.
  • List all source codes used when running a cohort definition on a specific database.
  • Find orphan codes, (source) codes that should be, but are not included in a particular concept set.
  • Compute cohort incidence across calendar years, age, and gender.
  • Break down index events into the specific concepts that triggered them.
  • Compute overlap between two cohorts.
  • Characterize cohorts, and compare these characterizations. Perform cohort comparison and temporal comparisons.
  • Explore patient profiles of a random sample of subjects in a cohort.

Screenshot

The Diagnostics Explorer Shiny app

Technology

The CohortDiagnostics package is an R package.

System Requirements

Requires R. Some of the packages used by CohortDiagnostics require Java.

Installation

  1. See the instructions here for configuring your R environment, including Java.

  2. In R, use the following commands to download and install CohortDiagnostics:

remotes::install_github("OHDSI/CohortDiagnostics")

User Documentation

Documentation can be found on the package website.

PDF versions of the documentation are also available:

Support

Contributing

Read here how you can contribute to this package.

License

CohortDiagnostics is licensed under Apache License 2.0

Development

CohortDiagnostics is being developed in R Studio.

Development status

Stable