omop
There are 4 repositories under omop topic.
- Language:PLpgSQL 122
callahantiff / OMOP2OBO
OMOP2OBO: A Python Library for mapping OMOP standardized clinical terminologies to Open Biomedical Ontologies
Language:Jupyter Notebook 79- Language:TypeScript 37
aphp / eds-scikit
eds-scikit is a Python library providing tools to process and analyse OMOP data
Language:Python 31ieeta-pt / DrAC
Extracting Patients' information from clinical notes and export them to an OMOP CDM database.
Language:Python 27PEDSnet / Data-Quality-Analysis
The PEDSnet Data Quality Assessment Toolkit (OMOP CDM)
Language:R 24USM-CHU-FGuyon / BlendedICU
OMOP standardization pipeline for ICU databases
Language:Python 23BiomedSciAI / DPM360
Repository for Disease Progression Modeling workbench 360 - An end-to-end deep learning model training framework in python on OMOP data
Language:JavaScript 19- Language:JavaScript 17
PheMA / cql-on-omop
Runs CQL phenotype definitions against an OMOP repository
Language:Java 12- Language:Python 12
- Language:TSQL 11
National-COVID-Cohort-Collaborative / guide-to-n3c-v1
Research with the National COVID Cohort Collaborative (N3C: https://ncats.nih.gov/n3c)
Language:TeX 10CNAG-Biomedical-Informatics / convert-pheno
A software toolkit for the interconversion of standard data models for phenotypic data
Language:Perl 9NCBI-Codeathons / OMOPOmics
Patient 'omics data in OMOP format
Language:HTML 9Health-Informatics-UoN / CaRROT-Mapper
Carrot: Convenient And Reusable Rapid Omop Transformer.
Language:Python 8- Rabbit-in-a-Blender
RADar-AZDelta / Rabbit-in-a-Blender
An ETL pipeline to transform your EMP data to OMOP
Language:Python 7 bcbi / PreprocessMD.jl
Medically-informed data preprocessing for machine learning
Language:Julia 6centre-for-health-informatics / Django-OMOP
The OMOP Common Data Model(v6) implemented in Django (v3)
Language:Python 6- Language:Java 6
andysouth / omopcept
omopcept : an R package to access OMOP conCEPTs (all pros, no cons!) and flexible tidyverse compatible R functions for querying.
Language:R 5- omopcdm-dot-net
dermatologist / omopcdm-dot-net
:notebook: .Net library for OMOP CDM management
Language:C# 5 JuliaHealth / OMOPCommonDataModel.jl
Pure Julia implementation of the OMOP Common Data Model (CDM)
Language:Julia 5- Language:Shell 4
answerdigital / oxford-omop-data-mapper
A documentation-centric ETL tool, implementing transformations of a number of common clincial datasets into the OMOP CDM.
Language:C# 3- gocdmLanguage:Go 3
- Language:Python 3
stjude-biohackathon / KIDS23-Team3
SCCRIP (Sickle Cell Clinical Research and Intervention Program) established a longitudinal cohort at multiple sites with Sickle Cell Disease (SCD) in 2014 managed by St. Jude Clinical Hematology. A new collaborator for SCCRIP has longitudinal data for 600 SCD patients in OMOP CDM format and this effort is to convert OMOP CDM to SCCRIP format.
Language:R 3- Language:Julia 2
- Language:Python 2
haydenbspence / Polyphemus
Polyphemus is a framework for coordinating specialty trained NLP models, with a focus on LLMs for use in applications to support observational medical research.
Language:Python 2miracum / recruit
A Cloud-Native Clinical Trial Recruitment Support System based on HL7 FHIR and the OMOP CDM
Language:Java 2pedro-cmat / v6-summary-omop-py
Federated summary algorithm for a RDB following the OMOP CDM and using Vantage6
Language:Python 2phenopackets / omop-exporter
Export Phenopackets from OMOP
Language:Java 2thehyve / ohdsi-etl-prias
Transformation from PRIAS to the OMOP CDM
Language:R 2
