A simple interface to inspect, improve and add concepts to biomedical NER+L -> MedCAT.
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Sep 4, 2025 - Python
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medcat
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Instructions and code to create for a table of UMLS, SNOMED or HPO concepts containing Dutch medical names, usable in named entity recognition and linking methods such MedCAT.
medical named-entity-recognition snomed dutch umls hpo named-entity-linking medical-natural-language-processing clinical-nlp medcat medical-text-mining
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Jan 20, 2023 - Jupyter Notebook
📄 Preprint submitted to Artificial Intelligence in Medicine 🏥 - "MediCARE: Medical Collaborative Agents REasoning over Interpretable Heterogeneous Graphs" 💊📊 - University of Naples "Federico II" 🎓
healthcare ner mimic-iii autogen xai graph-neural-networks pytorch-geometric medcat pyvis llm pyhealth drkg sympgan
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Apr 2, 2024 - Jupyter Notebook
A comprehensive Python package for healthcare data engineering, designed to extract, transform, and feature engineer patient data from CogStack-based EHR datalakes. Enables patient-level aggregation, longitudinal time series construction (up to 25 years retrospective), flexiblefeature engineering (biochemistry, demographics, medications, diagnoses
python nlp elasticsearch machine-learning time-series healthcare longitudinal-data ehr feature-engineering binary-classification medical-informatics patient-data cohort-analysis cogstack clinical-nlp feature-vectors medcat
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Jul 27, 2026 - Python
Script to iterate over rows in a SQL database, annotate with MedCATservice, and store in a destination database.
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May 31, 2022 - Clojure
Analysis of Reddit posts from r/Anxiety to explore symptoms, co-mentioned conditions, and emotional narratives using NLP methods. Modular Colab notebooks provided for reproducible research.
sentiment-analysis named-entity-recognition vader-sentiment-analysis phrase-extraction emotion-classification bert-embeddings distilroberta medcat goemotions negation-detection data-processing-language cardiff-roberta reddit-data-extraction bc5cdr
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Apr 26, 2026 - Jupyter Notebook
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