greenelab / snorkeling
Extracting biomedical relationships from literature with Snorkel 🏊
☆58Updated 4 years ago
Alternatives and similar repositories for snorkeling:
Users that are interested in snorkeling are comparing it to the libraries listed below
- Retrieve and process PubTator annotations☆44Updated last year
- Named Entity Recognition for biomedical entities☆47Updated 2 years ago
- This repository contains the corpora and supplementary data, along with instructions for recreating the experiments, for our paper: "Towa…☆15Updated 5 years ago
- ☆41Updated 5 years ago
- Saber is a deep-learning based tool for information extraction in the biomedical domain. Pull requests are welcome! Note: this is a work …☆102Updated 4 years ago
- MIL-RBERT: A Data-driven Approach for Noise Reduction in Distantly Supervised Biomedical Relation Extraction (BioNLP @ ACL 2020)☆19Updated last year
- a module to calculate the MeSH similarity☆26Updated 3 years ago
- Data structures and code to read/write BioC XML and Json.☆31Updated last year
- Tools for working with the S800 corpus☆11Updated 4 years ago
- A computational library for learning and evaluating biological knowledge graph embeddings - please see the main PyKEEN repo at https://gi…☆45Updated 2 years ago
- Bio relation extraction labeled dataset☆44Updated 2 years ago
- ☆72Updated last year
- Grounding of biomedical named entities with contextual disambiguation☆43Updated 4 months ago
- Python library for work with BioCreative files☆13Updated 6 years ago
- Abbreviation definition dection library trained on PubMed abstracts☆45Updated 4 years ago
- A collection of annotated biomedical corpora, which can be used for training supervised machine learning methods for various tasks in bio…☆36Updated 6 years ago
- SNP Extraction Tool for Human Variations☆27Updated last year
- BiOnt: Deep Learning using Multiple Biomedical Ontologies for Relation Extraction☆26Updated last year
- A framework for keeping biomedical text mining result up-to-date☆42Updated 4 years ago
- Repository for student projects within biomedical text mining from Lund University☆52Updated last year
- Table compiling the list of biomedically-related corpora available for named entity recognition (and some also suitable for association d…☆18Updated 6 years ago
- A neural named entity recognition and multi-type normalization tool for biomedical text mining☆176Updated 2 years ago
- This repository contains the code accompanying the paper "Learning Informative Representations of Biomedical Relations with Latent Variab…☆14Updated 3 years ago
- Benchmarking for Biomedical Natural Language Processing Tasks with a Domain Specific ALBERT☆28Updated 3 years ago
- Python library for working with BioC files☆13Updated 6 years ago
- BioFLAIR: Pretrained Pooled Contextualized Embeddings for Biomedical Sequence Labeling Tasks☆41Updated 4 years ago
- PubMedPortable automatically builds a PostgreSQL relational database schema and a Xapian full text index on PubMed XML files as well as i…☆25Updated 6 years ago
- Turning Ontologies Plus Annotation Properties into Vectors☆35Updated 4 years ago
- CoCoScore: context-aware co-occurrence scores for text mining applications☆18Updated 5 years ago
- Platform enabling Rapid Annotation for Clinical Entity Recognition☆50Updated 2 years ago