jakelever / pubrunner
A framework for keeping biomedical text mining result up-to-date
☆41Updated 4 years ago
Alternatives and similar repositories for pubrunner:
Users that are interested in pubrunner are comparing it to the libraries listed below
- Biomedical wordlists (of drugs, genes, etc) for several text mining projects☆18Updated last year
- Retrieve and process PubTator annotations☆43Updated last year
- Scripts and resources to create Hetionet v1.0, a heterogeneous network for drug repurposing☆32Updated 7 years ago
- ☆22Updated last year
- Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.☆23Updated 4 months ago
- Text-mined knowledgebase for drivers, oncogenes and tumor suppressors in cancer☆41Updated last year
- ☆24Updated 4 years ago
- Python library for work with BioCreative files☆13Updated 6 years ago
- Phenotype comparison tools using semantic similarity.☆61Updated 8 months ago
- A pipeline that takes clinical notes from EHRs and generate phenotype terms, then generate ranked gene list☆36Updated last year
- 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
- PhenoTagger☆54Updated 11 months ago
- Data structures and code to read/write BioC XML and Json.☆31Updated last year
- a module to calculate the MeSH similarity☆24Updated 3 years ago
- A metadata commons to store research software metadata☆40Updated this week
- Provided files are a partial extraction of the Orphanet knowledge base on Rare Diseases☆45Updated last month
- A combined deep learning tool for automated recognition of human phenotype ontology☆21Updated 2 years ago
- CoCoScore: context-aware co-occurrence scores for text mining applications☆18Updated 5 years ago
- ☆40Updated 4 years ago
- Extracting biomedical relationships from literature with Snorkel 🏊☆59Updated 3 years ago
- A python package for pathway visualization☆38Updated 4 years ago
- A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)☆21Updated 3 years ago
- This is the public repository for the EPIC tool.☆17Updated 2 years ago
- Grounding of biomedical named entities with contextual disambiguation☆39Updated 2 months ago
- various tools to download, convert and process the full text of scientific articles☆52Updated 2 years ago
- API providing access to papers and authors scraped from biorxiv.org☆59Updated last year
- a module to calculate the MeSH similarity☆25Updated 3 years ago
- simplified searching, fetching, and parsing records from NCBI using their E-utilities interface☆58Updated 6 months ago
- Extension of the WGCNA program to improve the eigengene similarity of modules and increase the overall number of genes in modules.☆61Updated 3 years ago
- Literature mining for T cell relations☆23Updated 2 years ago