Alternatives and similar repositories for pgxmine

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

• krishnanlab / txt2onto
  Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.
  ☆25Updated last year
• EBISPOT / efo
  Github repo for the Experimental Factor Ontology (EFO)
  ☆60Updated last week
• jakelever / civicmine
  Text mining cancer biomarkers for the CIVIC database
  ☆22Updated 2 years ago
• monarch-initiative / biolink-api
  API for linked biological knowledge
  ☆66Updated 3 years ago
• jakelever / pubrunner
  A framework for keeping biomedical text mining result up-to-date
  ☆42Updated 5 years ago
• elixir-europe / biohackathon-projects-2021
  For BioHackathon Europe 2021.
  ☆30Updated 2 years ago
• Orphanet / Orphadata_aggregated
  Provided files are a partial extraction of the Orphanet knowledge base on Rare Diseases
  ☆51Updated 2 months ago
• biopragmatics / biomappings
  🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from prima…
  ☆57Updated 2 weeks ago
• biocommons / eutils
  simplified searching, fetching, and parsing records from NCBI using their E-utilities interface
  ☆63Updated last month
• ohsu-comp-bio / g2p-aggregator
  Associations of genomic features, drugs and diseases
  ☆48Updated 2 years ago
• EclipseCN / PhenoBERT
  A combined deep learning tool for automated recognition of human phenotype ontology
  ☆26Updated 2 years ago
• dhimmel / obonet
  OBO-formatted ontologies → networkx (Python 3)
  ☆146Updated 6 months ago
• larsjuhljensen / tagger
  ☆22Updated 2 years ago
• opentargets / OnToma
  Map your disease and phenotype terms to the Open Targets platform ontology
  ☆21Updated last week
• monarch-initiative / dipper
  Data Ingestion Pipeline for Monarch
  ☆57Updated 2 years ago
• OntoGene / OGER
  ☆24Updated 4 years ago
• biothings / mygene.info
  MyGene.info: A BioThings API for gene annotations
  ☆128Updated last month
• erilu / pubmed-abstract-compiler
  Python script that downloads all pubmed abstracts corresponding to user-specified keyword searches, by performing automated NCBI E-utilit…
  ☆31Updated 5 years ago
• obophenotype / cell-ontology
  An ontology of cell types
  ☆182Updated this week
• ga4gh / phenopacket-schema
  Repository for the GA4GH phenopacket schema
  ☆89Updated last week
• neilswainston / biochem4j
  biochem4j: integrated and extensible biochemical knowledge through graph databases
  ☆12Updated 7 years ago
• obophenotype / upheno
  The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.
  ☆81Updated last month
• ncbi / tmVar3
  ☆20Updated 2 years ago
• biothings / myvariant.info
  MyVariant.info: A BioThings API for human variant annotations
  ☆95Updated 3 weeks ago
• jakelever / biowordlists
  Biomedical wordlists (of drugs, genes, etc) for several text mining projects
  ☆18Updated 2 years ago
• billgreenwald / Pubmed-Batch-Download
  Batch download articles based on PMID (Pubmed ID)
  ☆129Updated last year
• biopragmatics / bioregistry
  📮 An integrative registry of biological databases, ontologies, and nomenclatures.
  ☆136Updated this week
• PathwayMerger / PathMe
  Harmonizing pathway databases using Biological Expression Language (BEL)
  ☆20Updated last year
• lwgray / pyEntrezId
  Converts Ensembl, Uniprot, and HGNC IDs to Entrez Gene Id
  ☆46Updated 2 years ago
• ncbi-nlp / PhenoTagger
  PhenoTagger
  ☆60Updated last year