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Recapitulates Ontology software
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Recapitulates Ontology

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Added: February 01, 2010 | Visits: 740

Bio::Ontology::Relationship Bio::Ontology::Relationship is a relationship for an ontology. SYNOPSIS $rel = Bio::Ontology::Relationship->new( -identifier => "16847", -subject_term => $subj, -object_term => $obj, -predicate_term => $pred ); This is a basic implementation of Bio::Ontology::RelationshipI. The...



Platforms: *nix

License: Freeware Size: 4.7 MB Download (85): Bio::Ontology::Relationship Download

Added: July 21, 2010 | Visits: 543

Bio::Ontology::GOterm Bio::Ontology::GOterm is a representation of GO terms. SYNOPSIS $term = Bio::Ontology::GOterm->new ( -go_id => "GO:0016847", -name => "1-aminocyclopropane-1-carboxylate synthase", -definition => "Catalysis of ...", -is_obsolete => 0, -comment => "" ); $term->add_definition_references(...





Platforms: *nix

License: Freeware Size: 4.7 MB Download (76): Bio::Ontology::GOterm Download

Added: November 21, 2010 | Visits: 445

Bio::Ontology::Ontology Bio::Ontology::Ontology is a standard implementation of an Ontology. SYNOPSIS use Bio::Ontology::Ontology; # create ontology object my $ont = Bio::Ontology::Ontology->new(-name => "OBF"); # add terms, relationships ... my $bp = Bio::Ontology::Term->new(-name => "Bioperl"); my $obf =...


Platforms: *nix

License: Freeware Size: 4.7 MB Download (74): Bio::Ontology::Ontology Download

Added: July 15, 2010 | Visits: 489

Bio::Ontology::OntologyEngineI OntologyEngineI is a Perl interface a minimal Ontology implementation should satisfy. This describes the minimal interface an ontology query engine should provide. It intentionally doesnt make explicit references to the ontology being a DAG, nor does it mandate that the ontology be a...


Platforms: *nix

License: Freeware Size: 4.7 MB Download (71): Bio::Ontology::OntologyEngineI Download

Added: May 10, 2013 | Visits: 169

Experimental Factor Ontology It is an application focused on the ontology modeling ot the experimental factors in ArrayExpress.The application is used also in the constructing of mappings to multiple existing domain specific ontologies, such as Disease Ontology.


Platforms: Windows, Mac, *nix, Perl, BSD Solaris

License: Freeware Download (29): Experimental Factor Ontology Download

Added: July 16, 2013 | Visits: 182

ORE (Ontology Rule Editor) ORE (Ontology Rule Editor) is a platform-independent application to manage the use of inference rules defined on a model represented by an ontology. ORE offers a easy, well-guided and intiutive GUI to define and test these inference rules.


Platforms: *nix

License: Freeware Size: 28.43 MB Download (16): ORE (Ontology Rule Editor) Download

Released: December 25, 2012  |  Added: December 25, 2012 | Visits: 478

Phenex Phenex is an application for annotating character matrix files with ontology terms. Character states can be annotated using the Entity-Quality syntax for ontologically describing phenotypes. In addition, taxon entries can be annotated with identifiers from a taxonomy ontology. Phenex saves...


Platforms: Windows

License: Freeware Size: 28.4 MB Download (98): Phenex Download

Released: December 19, 2012  |  Added: December 19, 2012 | Visits: 326

Gene Ontology The home of the Gene Ontology project on SourceForge, including ontology requests, software downloads, bug trackers, and much, much more.


Platforms: Windows, Mac, Linux

License: Freeware Size: 44.5 MB Download (29): Gene Ontology Download

Released: June 02, 2012  |  Added: June 02, 2012 | Visits: 262

ONTODerm - Ontology for Dermatology ONTODerm is a specialty specific ontology for dermatology to integrate dermatology with medical software systems.


Platforms: Windows, Mac, Linux

License: Freeware Size: 29.23 KB Download (27): ONTODerm - Ontology for Dermatology Download

Released: October 20, 2012  |  Added: October 20, 2012 | Visits: 219

Ontology Common API Tasks (OntoCAT) An open source common API tasks to query existing ontology resources in local files (OWL and OBO) as well as public repositories (Bioportal, OLS) using a standardised, uniform interface.


Platforms: Windows, Mac, Linux

License: Freeware Size: 23.95 MB Download (27): Ontology Common API Tasks (OntoCAT) Download

Released: August 15, 2012  |  Added: August 15, 2012 | Visits: 260

ROO Rabbit to OWL Ontology construction ROO is an (OWL) ontology construction tool based on Protégé 4. ROO makes the ontology building process easier as it provides guidance about the steps involved and it allows to enter knowledge using an easy to learn controlled natural language.


Platforms: Windows, Mac, Linux

License: Freeware Size: 32.61 MB Download (28): ROO Rabbit to OWL Ontology construction Download

Added: August 24, 2013 | Visits: 191

TranscriptomeBrowser Each TS was tested for functional enrichment using annotation obtained from numerous ontologies or curated databases (Gene Ontology, KEGG, BioCarta, Swiss-Prot, BBID, SMART, NIH Genetic Association DB, COG/KOG, TargetScan, PicTar, TFBSConserved,...).


Platforms: Mac

License: Shareware Cost: $0.00 USD Size: 838 B Download (16): TranscriptomeBrowser Download

Added: September 03, 2013 | Visits: 228

Alignment API Alignment API is a development tool that allows various ontology matchers to share the same format and interface for accessing matching results. Using ontologies is the privileged way to achieve interoperability among heterogeneous systems within the Semantic web. However, as the ontologies...


Platforms: *nix

License: Freeware Size: 32.2 MB Download (18): Alignment API Download

Added: August 12, 2010 | Visits: 774

GO::Model::Term GO::Model::Term is a term or concept in an ontology. SYNOPSIS # From a file use GO::Parser; my $parser = new GO::Parser({handler=>obj}); # create parser object $parser->parse("gene_ontology.obo"); # parse file -> objects my $graph = $parser->handler->graph; # get L object my $term =...


Platforms: *nix

License: Freeware Size: 593.92 KB Download (79): GO::Model::Term Download

Added: January 25, 2010 | Visits: 688

Protege Prot+eg+e is an ontology editor and a knowledge-base editor.Prot+eg+e is also an open-source, Java tool that provides an extensible architecture for the creation of customized knowledge-based applications.


Platforms: Mac

License: Freeware Size: 23.4 MB Download (293): Protege Download

Added: July 03, 2013 | Visits: 286

SBML Reaction Finder Easily find and extract specific chemical reactions from the BioModels database. Features - Autosuggest for Gene Ontology terms - Update feature ensures access to the latest version of BioModels repository


Platforms: Mac

License: Shareware Cost: $0.00 USD Size: 11.18 MB Download (31): SBML Reaction Finder Download

Released: September 26, 2012  |  Added: September 26, 2012 | Visits: 329

Fluent Editor for OWL FluentEditor for OWL is comprehensive tool for editing and manipulating complex ontologies using Controlled Natural Language. Fluent editor provides alternative to XML-based OWL editors that is better suitable for human users. It's main feature is using Controlled English as a knowledge...


Platforms: Windows

License: Freeware Size: 11.9 MB Download (28): Fluent Editor for OWL Download

Released: August 07, 2012  |  Added: August 07, 2012 | Visits: 222

Vogon Vogon is a ontology-based text annotation instrument specially designed for creating relations between terms in a text. All the created relations can then be exported as RDF triples. Vogon was built using the Java programming language.


Platforms: Windows

License: Freeware Download (28): Vogon Download

Released: September 19, 2012  |  Added: September 19, 2012 | Visits: 212

AgentOWL AgentOWL library support RDF/OWL ontology models in JADE agent system. The library use Jena for ontology model manipulation.


Platforms: Windows, Mac, Linux

License: Freeware Size: 9.43 MB Download (27): AgentOWL Download

Released: July 22, 2012  |  Added: July 22, 2012 | Visits: 194

AKTive Media AKtive Media is an ontology based cross-media annotation (Images and Text) system. Our goal is to automate the process of annoation by suggesting knowledge to the user in an interactive way while the user is annotating and hence minimizing user effort.


Platforms: Windows, Mac, Linux

License: Freeware Size: 35.3 MB Download (27): AKTive Media Download

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