jakelever / pubrunnerLinks
A framework for keeping biomedical text mining result up-to-date
☆42Updated 4 years ago
Alternatives and similar repositories for pubrunner
Users that are interested in pubrunner are comparing it to the libraries listed below
Sorting:
- ☆24Updated 4 years ago
- Biomedical wordlists (of drugs, genes, etc) for several text mining projects☆18Updated 2 years ago
- Retrieve and process PubTator annotations☆44Updated last year
- A pipeline that takes clinical notes from EHRs and generate phenotype terms, then generate ranked gene list☆37Updated last year
- Data structures and code to read/write BioC XML and Json.☆33Updated last year
- ☆22Updated 2 years ago
- Python library for work with BioCreative files☆13Updated 7 years ago
- Text-mined knowledgebase for drivers, oncogenes and tumor suppressors in cancer☆41Updated 2 years ago
- A combined deep learning tool for automated recognition of human phenotype ontology☆24Updated 2 years ago
- Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.☆24Updated 10 months ago
- A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)☆21Updated 3 years ago
- Scripts and resources to create Hetionet v1.0, a heterogeneous network for drug repurposing☆32Updated 7 years ago
- ☆41Updated 5 years ago
- Text mining for pharmacogenomic associations for PharmGKB☆26Updated 2 years ago
- a module to calculate the MeSH similarity☆26Updated 4 years ago
- Get a nicely-chunked local copy of the biomedical literature (to use for other projects)!☆14Updated last year
- A metadata commons to store research software metadata☆41Updated last week
- simplified searching, fetching, and parsing records from NCBI using their E-utilities interface☆62Updated 11 months ago
- Literature mining for T cell relations☆23Updated 2 years ago
- A full-text article retrieval pipeline for biomedical literature.☆21Updated 3 months ago
- Python library for working with BioC files☆13Updated 7 years ago
- Extracting biomedical relationships from literature with Snorkel 🏊☆58Updated 4 years ago
- 🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from prima…☆55Updated this week
- K-RET: Knowledgeable Biomedical Relation Extraction System☆10Updated 4 months ago
- Python library for extracting HPO encoded phenotypes from text☆30Updated last year
- PhenoTagger☆57Updated last year
- PubMedPortable automatically builds a PostgreSQL relational database schema and a Xapian full text index on PubMed XML files as well as i…☆26Updated 6 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
- Text mining cancer biomarkers for the CIVIC database☆22Updated 2 years ago
- Phenotype comparison tools using semantic similarity.☆65Updated last year