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@OHDSI Observational Health Data Sciences and Informatics

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    331 repositories

    • d2e

      Public
      Data2Evidence is an end-to-end solution for management of OMOP data - https://data2evidence.org
      ohdsiomop
      TypeScript
      •
      Apache License 2.0
      •0•17•0•20•Updated May 31, 2025May 31, 2025

    • OmopViewer

      Public
      R
      •
      Apache License 2.0
      •0•3•19•4•Updated May 30, 2025May 30, 2025

    • CohortGenerator

      Public
      Cohort Generation for the OMOP Common Data Model
      hades
      R
      •12•14•23•6•Updated May 30, 2025May 30, 2025

    • CohortDiagnostics

      Public
      An R package for performing various cohort diagnostics.
      hades
      R
      •52•45•33•4•Updated May 29, 2025May 29, 2025

    • SelfControlledCaseSeries

      Public
      An R package for performing Self-Controlled Case Series (SCCS) analyses in an observational database in the OMOP Common Data Model.
      hades
      R
      •8•13•16•0•Updated May 29, 2025May 29, 2025

    • MIMIC

      Public
      MIMIC (Medical Information Mart for Intensive Care) is a large, single-center database comprising information relating to patients admitted to critical care units at a large tertiary care hospital. This repository contains the ETL to the OMOP CDM.
      Python
      •
      Apache License 2.0
      •28•78•22•2•Updated May 29, 2025May 29, 2025

    • ETL-CDMBuilder

      Public
      ETL-CDMBuilder is a repo containing a .NET Core application to perform ETL to OMOP CDM for multiple databases
      C#
      •
      Apache License 2.0
      •32•53•1•3•Updated May 29, 2025May 29, 2025

    • OmopSketch

      Public
      R
      •
      Apache License 2.0
      •0•3•17•1•Updated May 29, 2025May 29, 2025

    • ETL-LambdaBuilder

      Public
      CDM Builder leveraging AWS Lambda
      C#
      •
      Apache License 2.0
      •16•16•1•1•Updated May 29, 2025May 29, 2025

    • CohortConstructor

      Public
      R
      •
      Apache License 2.0
      •1•4•44•8•Updated May 29, 2025May 29, 2025

    • Polites

      Public
      Polites OHDSI Automation Tools
      Java
      •
      Apache License 2.0
      •1•0•4•0•Updated May 29, 2025May 29, 2025

    • Kala

      Public
      [Under development] Kala is an R package that takes one or more instantiated cohort as input and produces time series features, decomposition's, statistical summaries and convenient visualizations.
      R
      •4•3•3•1•Updated May 29, 2025May 29, 2025

    • CohortMethod

      Public
      An R package for performing new-user cohort studies in an observational database in the OMOP Common Data Model.
      hades
      R
      •63•85•24•1•Updated May 29, 2025May 29, 2025

    • Vocabulary-v5.0

      Public
      Build process for the OHDSI Standardized Vocabularies. Currently not available as independent release.
      PLpgSQL
      •
      The Unlicense
      •75•242•220•12•Updated May 29, 2025May 29, 2025

    • OncologyWG

      Public
      Oncology Working Group Repository
      Ruby
      •
      Apache License 2.0
      •24•56•164•19•Updated May 29, 2025May 29, 2025

    • Cyclops

      Public
      Cyclops (Cyclic coordinate descent for logistic, Poisson and survival analysis) is an R package for performing large scale regularized regressions.
      hades
      C++
      •33•40•20•1•Updated May 29, 2025May 29, 2025

    • CommunityDashboard

      Public
      Dashboard to monitor the health of the OHDSI community. A Flask app of Dash Dashboards for tracking public API's
      TypeScript
      •
      Apache License 2.0
      •1•6•11•0•Updated May 28, 2025May 28, 2025

    • ParallelLogger

      Public
      An R package for easy parallel computing, logging, and function call automation.
      hades
      R
      •8•12•3•0•Updated May 28, 2025May 28, 2025

    • PhenotypeR

      Public
      R
      •
      Apache License 2.0
      •1•3•34•1•Updated May 28, 2025May 28, 2025

    • Andromeda

      Public
      AsynchroNous Disk-based Representation of MassivE DAta: An R package aimed at replacing ff for storing large data objects.
      hades
      R
      •12•11•18•0•Updated May 27, 2025May 27, 2025

    • DeepPatientLevelPrediction

      Public
      An R package for performing patient level prediction using deep learning in an observational database in the OMOP Common Data Model.
      hadesdeep-learning
      R
      •4•13•27•2•Updated May 26, 2025May 26, 2025

    • BookOfOhdsi-2ndEdition

      Public
      This repository contains the 2nd edition of the Book
      TeX
      •
      Apache License 2.0
      •0•0•39•0•Updated May 25, 2025May 25, 2025

    • dbt-synthea

      Public
      [Under development] A dbt ETL project to convert a Synthea synthetic data set into the OMOP CDM
      Python
      •
      Apache License 2.0
      •10•29•26•5•Updated May 25, 2025May 25, 2025

    • Strategus

      Public
      An R package for coordinating and executing analytics using HADES modules
      R
      •11•8•22•4•Updated May 23, 2025May 23, 2025

    • GIS

      Public
      R
      •
      Apache License 2.0
      •9•14•74•3•Updated May 23, 2025May 23, 2025

    • gaiaDocker

      Public
      A new repository for the OHDSI GIS WG
      Shell
      •
      Apache License 2.0
      •0•2•1•0•Updated May 23, 2025May 23, 2025

    • OhdsiReportGenerator

      Public
      Code to extract data from the OHDSI results structure and generate plots, presentations and reports
      R
      •1•0•1•1•Updated May 23, 2025May 23, 2025

    • searchpubmed

      Public
      A Python package for searching PubMed and retrieving article metadata via the NCBI E-utilities (ESearch, ESummary, EFetch, ELink).
      Python
      •
      Apache License 2.0
      •1•1•1•0•Updated May 22, 2025May 22, 2025

    • ProtocolGenerator

      Public
      Converts a Strategus JSON specification into a human readable html document
      R
      •0•0•8•0•Updated May 22, 2025May 22, 2025

    • drat

      Public
      drat repository for OHDSI R packages
      7•5•0•0•Updated May 22, 2025May 22, 2025
    0