kotfic / i2b2_evaluation_scripts
Repository for managing python tools that model standoff annotations for i2b2 2014 challenge
☆14Updated 9 years ago
Alternatives and similar repositories for i2b2_evaluation_scripts:
Users that are interested in i2b2_evaluation_scripts are comparing it to the libraries listed below
- Clinical Text Summarization with Syntax-Based Negation and Semantic Concept Identification☆21Updated 5 years ago
- Utility for cui2vec in Go☆12Updated 2 years ago
- A fine-tuned BERT using EHR notes.☆14Updated 5 years ago
- Medical Similarity Dataset creation from SNOMED☆27Updated 2 years ago
- UMLS in Python with MongoDB.☆18Updated 6 years ago
- This is a repository for annotation data for the THYME Project, a clinical natural language processing project dedicated to extracting us…☆37Updated 9 years ago
- Universal Dependencies (v1.0) for the GENIA 1.0 Treebank, along with additional raw abstracts and metadata.☆22Updated 4 years ago
- Code for the old version of BioMedICUS, for the new version see the biomedicus3 repository.☆44Updated 2 years ago
- Crowdsourced ground truth for medical relation extraction.☆69Updated 6 years ago
- Bio-YODIE is GATE's biomedical named entity linking pipeline.☆17Updated 5 years ago
- Medical Relations and Entities Extraction☆36Updated 2 years ago
- Miscellaneous tools for clinical ML☆29Updated 7 years ago
- Source code used to develop the OHDSI knowledge base of sources with information relevant for assessing assocations between drugs and hea…☆55Updated 6 years ago
- Data and code from our "Inferring Which Medical Treatments Work from Reports of Clinical Trials", NAACL 2019. This work concerns inferrin…☆62Updated 3 years ago
- Clinical Concept Extraction with Contextual Word Embedding☆40Updated 4 years ago
- Public release of the DeepPhe analytic software☆30Updated 2 years ago
- A near real-time named-entity recognizer☆59Updated 10 months ago
- Code for manipulating the structure of UMLS files and converting ontologies or sets of ontologies into a graph structure.☆41Updated 4 years ago
- Clinical Language Annotation Modeling and Processing toolkit☆16Updated 8 years ago
- Bidirectional Recurrent Neural Network based sequence labeling for Medical Text.☆25Updated 8 years ago
- Negation detection NLP tool. If you use the code, please cite George Gkotsis, Sumithra Velupillai, Anika Oellrich, Harry Dean,…☆55Updated 8 years ago
- ☆98Updated last year
- ☆98Updated 3 years ago
- Flexible and powerful platform for biomedical information extraction from text☆39Updated 7 years ago
- Surfacing Semantic Data from Clinical Notes in Electronic Health Records for Tailored Care, Trial Recruitment and Clinical Research☆89Updated 2 years ago
- Embedding Complexity In the Data Representation Instead of In the Model (arXiv:1802.04233)☆24Updated 7 years ago
- A simple REST-server around ctakes clinical pipeline.☆30Updated 8 years ago
- A clinical BERT-based NLP tool for parsing clinical trial abstracts following the PICO framework☆45Updated 4 years ago
- ☆53Updated 4 years ago
- Tokenization, sentence segmentation, POS tagging and dependency parsing for biomedical texts (BMC Bioinformatics 2019)☆33Updated 5 years ago