Alternatives and similar repositories for pgxmine:

Users that are interested in pgxmine are comparing it to the libraries listed below

• jakelever / pubrunner
  A framework for keeping biomedical text mining result up-to-date
  ☆41Updated 4 years ago
• jakelever / cancermine
  Text-mined knowledgebase for drivers, oncogenes and tumor suppressors in cancer
  ☆41Updated last year
• krishnanlab / txt2onto
  Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.
  ☆23Updated 6 months ago
• jakelever / civicmine
  Text mining cancer biomarkers for the CIVIC database
  ☆22Updated last year
• PathwayMerger / PathMe
  Harmonizing pathway databases using Biological Expression Language (BEL)
  ☆19Updated 7 months ago
• Orphanet / Orphadata_aggregated
  Provided files are a partial extraction of the Orphanet knowledge base on Rare Diseases
  ☆45Updated 2 months ago
• biopragmatics / biomappings
  🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from prima…
  ☆51Updated last week
• greenelab / pubtator
  Retrieve and process PubTator annotations
  ☆44Updated last year
• EBISPOT / efo
  Github repo for the Experimental Factor Ontology (EFO)
  ☆58Updated this week
• ohsu-comp-bio / g2p-aggregator
  Associations of genomic features, drugs and diseases
  ☆48Updated 2 years ago
• ncbi / tmVar3
  ☆16Updated last year
• larsjuhljensen / tagger
  ☆22Updated last year
• dhimmel / integrate
  Scripts and resources to create Hetionet v1.0, a heterogeneous network for drug repurposing
  ☆32Updated 7 years ago
• jakelever / biotext
  Get a nicely-chunked local copy of the biomedical literature (to use for other projects)!
  ☆14Updated 8 months ago
• OntoGene / OGER
  ☆24Updated 4 years ago
• bio2bel / bio2bel
  A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
  ☆21Updated 3 years ago
• opentargets / OnToma
  Map your disease and phenotype terms to the Open Targets platform ontology
  ☆21Updated 3 months ago
• phenopackets / phenopacket-tools
  An app and library for building, conversion, and validation of GA4GH Phenopackets.
  ☆13Updated last year
• research-software-ecosystem / content
  A metadata commons to store research software metadata
  ☆40Updated this week
• phenopackets / phenopacket-schema
  Repository for the GA4GH phenopacket schema
  ☆84Updated 5 months ago
• jakelever / biowordlists
  Biomedical wordlists (of drugs, genes, etc) for several text mining projects
  ☆18Updated last year
• EBISPOT / EFO-UKB-mappings
  ☆13Updated 5 years ago
• BaderLab / EPIC
  This is the public repository for the EPIC tool.
  ☆17Updated 2 years ago
• EclipseCN / PhenoBERT
  A combined deep learning tool for automated recognition of human phenotype ontology
  ☆23Updated 2 years ago
• obophenotype / upheno
  The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.
  ☆78Updated last month
• GeneDx / txt2hpo
  Python library for extracting HPO encoded phenotypes from text
  ☆28Updated 9 months ago
• bhklab / PharmacoGx
  R package to analyze large-scale pharmacogenomic datasets.
  ☆68Updated last month
• hammerlab / t-cell-relation-extraction
  Literature mining for T cell relations
  ☆23Updated 2 years ago
• GuiltyTargets / guiltytargets
  Target prioritization using network representation learning
  ☆11Updated 3 years ago
• EBISPOT / goci
  GWAS Catalog Ontology and Curation Infrastructure
  ☆26Updated last month