Search Results for "ontology"
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Showing 27 open source projects for "ontology"
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Common Core Ontologies
The Common Core Ontology Repository
The Common Core Ontologies (CCO) comprise twelve ontologies that are designed to represent and integrate taxonomies of generic classes and relations across all domains of interest. CCO is a mid-level extension of Basic Formal Ontology (BFO), an upper-level ontology framework widely used to structure and integrate ontologies in the biomedical domain (Arp, et al., 2015). BFO aims to represent the most generic categories of entity and the most generic types of relations that hold between them... -
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clusterProfiler
A universal enrichment tool for interpreting omics data
clusterProfiler is an R/Bioconductor package that provides a unified workflow for functional enrichment analysis to interpret high-throughput omics results. It supports both over-representation analysis and gene set enrichment analysis, letting you work with unranked gene lists or ranked statistics from differential pipelines. The package connects to multiple knowledge bases—such as Gene Ontology, KEGG, Reactome, Disease Ontology, MeSH and others—through a consistent interface so you can query... -
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TRAK Metamodel
Tuples (triples) for TRAK architecture viewpoints and views
The definition of the metamodel for TRAK (defines allowed AD elements and relationships i.e. tuples/ triples for the TRAK viewpoints and views). TRAK is a general systems-thinkers'/system engineering enterprise architecture framework. It is simple, user-friendly, pragmatic and not limited to IT. 100% triple-centric and semantically-sound. Forms basis for RDF + OWL ontology description - see https://trakmetamodel.sourceforge.io/vocab/TRAK_metamodel.html. Each TRAK metamodel element now has its... -
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The Disease Ontology has moved to Github. New project page: https://github.com/DiseaseOntology Disease Ontology is a stuctured controlled vocabulary originally based upon and mapped to medical billing codes. The goal of this ontology is to create a comprehensive hierachical controlled vocabulary to represent subsumptive disease relationships.
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OntoMetriCalc
A Java API for measuring OWL ontologies
OntoMetriCalc (Ontology Metrics Calculator) is a Java API for measuring OWL ontologies based on Jena. -
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Framework for text mining, data integration and data analysis. Keywords: ontology and graph alignment, relation mining, warehouse, semantic database integration, bioinformatics, systems biology, microarray, Java.
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Ontology Testing
Part of the XD Tools plugin for ontology testing.
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Composer for OWL-S-based Semantic Web Services that can load SWRL-based Semantic Bridges to mediate between heterogeneous ontology concepts. Exports semantic. enh. BPEL code. Dependency to BerliOS-project: "sembpelext". Also see QualiPSo.org for details.
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Semtinel is an application framework for the semi-automatic creation, maintenance and analysis of hierarchical concept schemes (thesaurus, classification or ontology). Semtinel supports the development of new analysis methods and visualization techniques
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MEDILIG - Medical Life-Guard
EHR/EMR cross-platform electronic medical record application
EHR/EMR cross-platform software for the design, implementation and use of autonomous, open, database models for multilingual medical knowledge management systems from primary care to continuing care. -
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Ontology Representation and Data Integration (ORDI) is middleware framework to allow enterprise data integration via RDF-like data model.
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A collection of tools for working with the comparative data analysis ontology including import/export facilities for common phylogenetic file formats, and also a triple-store framework.
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Tools * for the OASIS LegalXML eContracts XLS2XML using the JEXCELAPI to parser a XLS (eContracts XSL) to a XML (eContracts XML) * OpaalsFinder is a web GUI to search in all xml document (eContracts XML) * Reasoned ontology (Osgi) *Test distributed
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AlViz is a research prototype for visual ontology alignment implemented as multiple-view plug-in for Protege using J-Trees and Graphs. Based on similarity measures of an ontology matching algorithm AlViz helps to assess and optimize the alignment results
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Interoperability enabling tools, for exchanging technical data between companies, or for internal data integration, alpha-numeric, 2D or 3D data. Compatible with ISO 15926 and expressed in ontology using RDF/OWL.
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Docgen plugin for Protege provides a quick export of all the content of an ontology (classes, instances and documentation) in various formats (html, pdf, fo...). Images, Graphs, URL are readyly included in reports.
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oBrowse is a web based ontology browser developed in java. oBrowse parses OWL files of an ontology and displays ontology in a tree view. Protege-API, JSF are used in development.
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GSCope3 performs microarray data analysis to find correlations between BLSOM clusters and any form of omic knowledge expressed in OSML. Includes example metabolic pathway, gene ontology, genome position, transcription and PPI knowledge in OSML format.
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This projects aims to create a web-portal which can be used for automatcially analyzing RSS feeds and classifying them in an OWL ontology.
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OntoViz, an ontology browser is an extension of my undergraduate honors thesis. This helps a user browse ontologies using a variety of graph drawing algorithms. The ontology can be specified using a text file, a local/remote database or a web service.
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Osprey is a software platform for visualization of complex interaction networks. Osprey builds data-rich graphical represetations from Gene Ontology (GO) annotated interactions maintained by the BioGRID.
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Yadoda is a personal digital library: user can create his own ontology and a db of digital documents (pdf,ps,mp3,images) that can be enriched with metadata (author,date,title). User can create semantic relations between documents and navigate them.
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OWL Interactive is a visualization environment to graphically and interactively display contents of OWL ontologies. It represents concept and their interrelationships based on the knowledge representation (KR) primitives defined by OWL ontology language.
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The VilAug framework for visual linguistics! This gadget contains an IconNet with icons like WordNet and an IconMessenger as instant messenger. A new ontology is used, grammars for visual languages designed. A language with signs? Create it with VilAug.