Synthetic Biology:Semantic web ontology/Software: Difference between revisions
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*[http://opensource.nokia.com/projects/wilbur/index.html Wilbur] Nokia RDF toolkit written in Common LISP | *[http://opensource.nokia.com/projects/wilbur/index.html Wilbur] Nokia RDF toolkit written in Common LISP | ||
*[http://librdf.org/ Redland] RDF Application Framework ([http://download.librdf.org/binaries/ Redland RPMs]) | *[http://librdf.org/ Redland] RDF Application Framework ([http://download.librdf.org/binaries/ Redland RPMs]) | ||
**[http://rdf-redland.rubyforge.org/ RDF-Redland] - a Ruby Wrapper around the Redland Application Framework | |||
*[http://activerdf.org/ ActiveRDF] is a library for accessing RDF data from Ruby programs. | *[http://activerdf.org/ ActiveRDF] is a library for accessing RDF data from Ruby programs. | ||
*[http://www.mnot.net/sw/sparta/ Sparta] is an Python API for RDF that is designed to help easily learn and navigate the Semantic Web programmatically. Unlike other RDF interfaces, which are generally triple-based, Sparta binds RDF nodes to Python objects and RDF arcs to attributes of those Python objects. | *[http://www.mnot.net/sw/sparta/ Sparta] is an Python API for RDF that is designed to help easily learn and navigate the Semantic Web programmatically. Unlike other RDF interfaces, which are generally triple-based, Sparta binds RDF nodes to Python objects and RDF arcs to attributes of those Python objects. |
Revision as of 23:14, 1 May 2006
RDF
- Developers Guide to Semantic Web Toolkits for different Programming Languages
- Scalability Report on Triple Store Applications
- Oracle Semantic Technologies - links to the white papers at the bottom of the page
RDB-RDF
- RDF data model in Oracle - white paper (PDF) decribing DB schema for RDF statements storage.
- Storing RDF in a relational database
- Relational Databases on the Semantic Web from Design Issues.
- Mapping Semantic Web Data with RDBMSes from SWAD Europe.
- Databases, Query, API, Interfaces report on Query languages from SWAD Europe.
- D2R Map poster from WWW2003
- Protégé JDBC backend design rationale
- RDF access to relational databases
Triple Stores
- Jena - a Java framework for building Semantic Web applications. It provides a programmatic environment for RDF, RDFS and OWL, including a rule-based inference engine.
- jena-dev - Jena developers mailing list archive
- Jena relational database backend
- Joseki - a SPARQL Server for Jena
- ARQ - a SPARQL Processor for Jena
- Eyeball: checking RDF/OWL for common problems
- Jena2 Manager
- 4Suite™: an open-source platform for XML and RDF processing
- Sesame: an open source RDF database with support for RDF Schema inferencing and querying
- kowari: database for the storage, retrieval and analysis of RDF and OWL metadata; non-relational, written in Java.
- ARC RDF Store is a SPARQL-enabled RDF storage system optimized for shared, hosted (or otherwise performance-limited) Web environments.
- 3store - developed in the Intelligence, Agents and Multimedia research group at Southampton University, as part of the AKT Project.
- rdfDB: An RDF Database
- RDFStore - Perl/C RDF storage and API
- KAON is an open-source ontology management infrastructure targeted for business applications. It includes a comprehensive tool suite allowing easy ontology creation and management and provides a framework for building ontology-based applications. An important focus of KAON is scalable and efficient reasoning with ontologies.
- ParkaSW is an inferencing database, built for use with the semantic web. It is currently undergoing revision to support RDF internally.
Commercial
- RDF Gateway - commercial Windows app but free version available
- Virtuoso is an innovative Virtualization platform that transparently integrates Data, Services, and Business Processes across the enterprise.
Libraries
- Wilbur Nokia RDF toolkit written in Common LISP
- Redland RDF Application Framework (Redland RPMs)
- RDF-Redland - a Ruby Wrapper around the Redland Application Framework
- ActiveRDF is a library for accessing RDF data from Ruby programs.
- Sparta is an Python API for RDF that is designed to help easily learn and navigate the Semantic Web programmatically. Unlike other RDF interfaces, which are generally triple-based, Sparta binds RDF nodes to Python objects and RDF arcs to attributes of those Python objects.
- JRDF - Java RDF API
- RDFReactor views the RDF data model through object-oriented Java proxies.
- TAP @ Stanford
- RAP - RDF API for PHP
Browsers
- Tabulator: AJAX and Semantic Web - browser
- SIMILE Longwell is a web-based RDF browser.
- BrownSauce generic RDF browser
- foafnaut - SVG FOAF browser
Parsers
- ARP: Another RDF Parser (Jena RDF/XML Parser, from Jeremy Carroll @ HP)
- MySQL Dmoz RDF Parser - This Perl script converts the Dmoz content.rdf file from the RDF format into a text file which can be easily loaded into MySQL.
Visualization
- RDFRoom is an isometric RDF viewer. It gives the user ways to view and manipulate his RDF data that might make him see the data in a brand new perspective.
- IsaViz is a visual environment for browsing and authoring RDF models represented as graphs.
Other
- RDF Validator
- D2R Map - Database to RDF Mapping Language and Processor
- D2RQ - Treating Non-RDF Databases as Virtual RDF Graphs
- KAON Reverse is a prototype GUI for mapping relational databse content to ontologies.
- RDFizers are tools that allow to transform existing data into an RDF representation.
RDF Schema
- RDF Schema formatter - extracts human readable information from a RDF Schema
Ontology editors
- List of ontology editors
- Ontology tools survey @ xml.com from 2004
- Protégé is a free, open source ontology editor and knowledge-base framework
- Protégé OWL Plugin - ontology editor for the Semantic Web
- Projects that use Protégé
- OWL-S Editor is a Tab Widget plugin for Protégé
- OilEd is an ontology editor allowing the user to build ontologies using DAML+OIL
- Ontolingua
- Chimaera is a software system that supports users in creating and maintaining distributed ontologies on the web
- SWOOP A Hypermedia-based Featherweight OWL Ontology Editor
- Altova SemanticWorks - visual RDF and OWL editor that autogenerates RDF/XML and N-Triples
- CmapTools Ontology Editor - concept maps provide a human-centered interface to display the structure, content, and scope of an ontology
- SweDE is built on the Eclipse IDE, includes an OWL editor with helpful features like syntax highlighting, autocompletion, and error-detection. It also currently integrates existing tools like the OWL Validator, Kazuki (OWL to Java code generator), and DumpOnt (Ontology Visualizer).
- m3t4.studio Semantic Toolkit - RDF and OWL editors for the Eclipse IDE.
Query
- SPARQL engine
- sparql2sql - a query engine for SPARQL over Jena triple stores
- Javascript SPARQL library and AJAX SPARQL client
- RDF Query-o-matic Light
- SPARQLer - an RDF Query server
Rule engines
Companies
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