Version 2 (modified by ktym, 9 years ago)

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Tools

Creating generic-yet-usable end user tools that work directly with the RDF graph data model.

Open Bio*

  • Common API
    • User-side APIs
    • DB-side APIs (for triple store, Linked Data on the web)
  • Programs
    • Data format converters
    • Tools for import/export/search
  • Projects
    • BioRuby
    • BioPython
    • BioPerl
    • BioJava
    • BioLib

Text mining

  • GO PubMed?
    • NER for genes, diseases, drugs
  • MEDIE
  • Query builder from natural language

Storage

  • Existing triple stores
    • Virtuoso
    • ORACLE
    • :
  • Evaluation
    • Scale?
    • Speed
    • Interface

End-user software

  • Cytoscape
  • BioMart
  • InterMine
  • Galaxy
  • G-language