/ 
ONTO-PERL-1.08
River stage zero No dependents

Changes for version 1.08

Documentation

ONTO-PERL
perl modules for CCO and OBO ontologies
get_ancestor_terms.pl
Collects the ancestor terms (list of IDs) from a given term (existing ID) in the given OBO ontology.
get_descendent_terms.pl
Collects the descendent terms (list of IDs) from a given term (existing ID) in the given OBO ontology.
go2owl.pl
Gene Ontology (in OBO) to OWL translator.
obo2owl.pl
OBO to OWL translator.
obsolete_term_id_vs_def_in_go.pl
Obsolete terms vs their definitions.
obsolete_term_id_vs_name_in_go.pl
Obsolete terms vs their names.
owl2obo.pl
OWL to OBO translator (oboinowl mapping).

Modules

OBO::CCO::CCO_ID
A module for describing Cell Cycle Ontology (CCO) identifiers. Its namespace, subnamespace and number are stored.
OBO::CCO::CCO_ID_Set
An implementation of a set of OBO::CCO::CCO_ID objects.
OBO::CCO::CCO_ID_Term_Map
A map between CCO IDs and term names.
OBO::CCO::GoaAssociationSet
A GoaAssociationSet implementation
OBO::CCO::GoaParser
A GOA associations to OBO translator.
OBO::CCO::IntActParser
An IntAct to OBO parser/filter.
OBO::CCO::Interaction
An interaction from IntAct
OBO::CCO::InteractionManager
An IntAct to OBO parser/filter manager.
OBO::CCO::Interactor
An interactor from IntAct
OBO::CCO::NCBIParser
A NCBI taxonomy to OBO translator.
OBO::CCO::NewIntActParser
A new IntAct to OBO parser/filter.
OBO::CCO::OrthoMCLParser
An orthoMCL data to OBO translator
OBO::CCO::UniProtParser
A UniProt to OBO translator.
OBO::CCO::XMLIntactParser
An IntAct XML parser
OBO::Core::Dbxref
Reference structure.
OBO::Core::Def
A definition structure of the current term. A term must have zero or one instance of this type per term description.
OBO::Core::GoaAssociation
A GOA association record
OBO::Core::IDspace
A mapping between a "local" ID space and a "global" ID space
OBO::Core::Ontology
An ontology holding terms and their relationships
OBO::Core::Relationship
A relationship between two terms or two relationships within an ontology.
OBO::Core::RelationshipType
A type of relationship type in an ontology
OBO::Core::Synonym
A term synonym
OBO::Core::SynonymTypeDef
A synonym type definition. It should contain a synonym type name, a space, a quote enclosed description, and an optional scope specifier.
OBO::Core::Term
A universal/term/class/concept in an ontology
OBO::Parser::OBOParser
An OBO (Open Biomedical Ontologies) file parser.
OBO::Parser::OWLParser
An OWL parser (oboInOwl mapping).
OBO::Util::DbxrefSet
A DbxrefSet implementation
OBO::Util::ObjectIdSet
A Set implementation of object Ids
OBO::Util::ObjectSet
An implementation of a set of ontology objects
OBO::Util::Ontolome
A set of ontologies
OBO::Util::Set
A Set implementation
OBO::Util::SynonymSet
A Set implementation of Synonyms
OBO::Util::SynonymTypeDefSet
A Set implementation of Synonym Types
OBO::Util::TermSet
A Set implementation

Other files