SQLAlchemy Declarative Mapping Models for OHDSI OMOP CDM
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Updated
Jun 7, 2024 - Python
SQLAlchemy Declarative Mapping Models for OHDSI OMOP CDM
During the pandemic countries in the African region used data systems they built on top of the WHO Integrated Disease Surveillance and Response (IDSR) framework to track COVID-19 and formulate public health responses. Our IDSR project wrangles these data systems into instances of a common data model and conducts network research on top of them.
R package to parse datasets into SQLite-friendly tables
The omop2survey Python package transforms standardized response codes from the OMOP CDM survey variables into numeric values and simplifies data preparation by providing functionalities for mapping and converting response codes, as well as handling missing data, facilitating easier and more reliable data analysis
A web app for visualization and analysis of healthcare data using OMOP CDM.
R package for finding patients in SQL databases using formulas and without using SQL joins
Public content available for LinkR
A documentation-centric ETL tool, implementing transformations of a number of common clincial datasets into the OMOP CDM.
A set of document templates facilitating efficient implementation and operation of an OMOP/OHDSI installation
A tool for backing up OHDSI WebAPI cohorts in a git repository
Companion code repository to Marcou et al. 2024, Creating a computer assisted ICD coding system: Performance metric choice and use of the ICD hierarchy
Federated summary algorithm for a RDB following the OMOP CDM and using Vantage6
ETL engine to transform openEHR into OMOP. Loads OMOCL configuration files.
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