Group items tagged

Graphical ontology editor, plugin for protege

"Cobalt" is an open source virtual world browser and construction toolkit application being developed at Duke University. Cobalt will make it possible for people to easily create, publish, access, and participate in a network of linked virtual worlds. Currently in pre-alpha and built using the Croquet open source software platform, Cobalt uses peer-based messaging to eliminate the need for virtual world servers and makes it very simple to create and share secure virtual worlds that run on all major software operating systems.

Open Office Toolkig

ClioPatria is the award winning, SWI-Prolog-based platform for Semantic Web Applications. It joins the SWI-Prolog RDF and HTTP infrastructure with a SeRQL/SPARQL query engine, interfacing to the The Yahoo! User Interface Library (YUI) and libraries that support semantic search.

AceWiki is a semantic wiki that is powerful and at the same time easy to use. Making use of the controlled natural language ACE, the formal statements of the wiki are shown in a way that looks like natural English. In order to help the users to write correct ACE sentences, AceWiki provides a predictive authoring tool.

In my previous article, I introduced the Map/Reduce model as a powerful model for parallelism. However, although Map/Reduce is simple, powerful, and provides a good opportunity to parallelize algorithm, it is based on a rigid procedural structure that requires injection of custom user code and therefore it is not easy to understand the big picture from a high level. You need to drill into the implementation code of the map and reduce functions in order to figure out what is going on.

This is a sub-project of the BioMoby project. It aims to develop tools in Java in order: * to access BioMoby registries, allowing all features provided by such registries, including but not limited to registering and deregistering of the BioMoby services and their parts, discovering them, and understanding their data in various formats (such as RDF), * to create Java implementations of BioMoby services, especially to help service providers with creating BioMoby data containers (input and output data) without exposing providers to the complexity of the XML required and produced by BioMoby services, and finally

Purpose 1. Act as a central point of reference and support for people who think they are interested in open data in science. 2. Identify practices of early adopters, collecting data and developing guides. 3. Act as a hub for the development of low cost, community driven projects around open data in science.

We are often told that the best things in life are free, but few have ever tried to build it into a business model. Yet it is curious that while financial capitalism is in global meltdown, a completely different kind of entrepreneurial activity - call it commune-ism - is rising, from an admittedly low base.

ZooKeeper is a high-performance coordination service for distributed applications. It exposes common services - such as naming, configuration management, synchronization, and group services - in a simple interface so you don't have to write them from scratch. You can use it off-the-shelf to implement consensus, group management, leader election, and presence protocols. And you can build on it for your own, specific needs.

Topaz is a nonprofit organization of focused on developing open source software around collaborative creation, management and sharing of information.

The Wonderland Modules Incubator project is a sandbox where developers can develop extensions to Wonderland in the form of modules. Incubator projects are not part of the core Wonderland code, but are experimental extensions.

Collaborative Protégé is an extension of the existing Protégé system that supports collaborative ontology editing as well as annotation of both ontology components and ontology changes.

Visuwords™ online graphical dictionary - Look up words to find their meanings and associations with other words and concepts. Produce diagrams reminiscent of a neural net. Learn how words associate.

Longwell mixes the flexibility of the RDF data model with the effectiveness of the faceted browsing UI paradigm and enables you to visualize and browse any arbitrarely complex RDF dataset, allowing you to build a user-friendly web site out of your data within minutes and without requiring any code at all.

IkeWiki is a new kind of Wiki (a Semantic Wiki ) developed by SalzburgResearch that allows users to annotate pages and links between pages with semantic annotations. Such annotations are useful because they give machines a certain amount of "understanding" of the content that goes beyond merely displaying the page. This information can then e.g. be used for context-specific presentation of pages, advanced querying, consistency verification or drawing conclusions. Currently, IkeWiki can make use of some of the knowledge represented in RDFS and OWL schemas to display enhanced navigation tools. Furthermore, we implemented a sample "biology ontology" that automatically displays a taxonomy box for biological objects. Although IkeWiki looks and behaves like Wikipedia/MediaWiki in many aspects, it is a complete rewrite, and the system design significantly differs from other Wikis. IkeWiki makes full use of Semantic Web technologies like RDF(S) and OWL using the Jena RDF store, and is implemented as an AJAX-based Rich Internet Application, based on the Dojo Toolkit

BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It includes objects for manipulating biological sequences, file parsers, DAS client and server support, access to BioSQL and Ensembl databases, tools for making sequence analysis GUIs and powerful analysis and statistical routines including a dynamic programming toolkit.

Ensembl is a joint project between EMBL - EBI and the Sanger Institute to develop a software system which produces and maintains automatic annotation on selected eukaryotic genomes. Ensembl is primarily funded by the Wellcome Trust. This site provides free access to all the data and software from the Ensembl project. Click on a species name to browse the data.