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GOLD

GOLD. Ontology access: OWL API. Isomorphic to OWL2 standard Highly Expressive Java Object Model Parsing/Writing OWL2 syntaxes Reasoner Interfaces. org.oboformat. oboparser that ships with OWLAPI is incomplete new parser based on formal specification of obo

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GOLD

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  1. GOLD

  2. Ontology access: OWL API • Isomorphic to OWL2 standard • Highly Expressive Java Object Model • Parsing/Writing OWL2 syntaxes • Reasoner Interfaces

  3. org.oboformat • oboparser that ships with OWLAPI is incomplete • new parser based on formal specification of obo • not yet fully integrated with OWLAPI • called externally

  4. owltools • Wraps OWLAPI • Capabilities • “OBO-style” convenience methods • simple graph traversal • QuickGO graphics • Ontology QC / style checks [todo] • experimental: • semantic similarity • phenolog • MIREOT

  5. gold • Gene Ontology specific functionality • database • SQL DDL • hibernate layer • GAFs • annotation inference and QC

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