Cyclone: java-based querying and computing with Pathway/Genome databases
| Autor: | Serge Smidtas, Vincent Schächter, François Le Fèvre |
|---|---|
| Rok vydání: | 2007 |
| Předmět: |
Statistics and Probability
SQL Databases Factual Java Relational database Computer science computer.software_genre Query language Biochemistry Genome Software Graph drawing Databases Genetic Hardware_INTEGRATEDCIRCUITS Use case Molecular Biology computer.programming_language Eclipse Database business.industry Computational Biology Computer Science Applications Computational Mathematics ComputingMethodologies_PATTERNRECOGNITION Computational Theory and Mathematics Programming Languages business computer Metabolic Networks and Pathways Hardware_LOGICDESIGN |
| Zdroj: | Bioinformatics. 23:1299-1300 |
| ISSN: | 1367-4811 1367-4803 |
| Popis: | Summary: Cyclone aims at facilitating the use of BioCyc, a collection of Pathway/Genome Databases (PGDBs). Cyclone provides a fully extensible Java Object API to analyze and visualize these data. Cyclone can read and write PGDBs, and can write its own data in the CycloneML format. This format is automatically generated from the BioCyc ontology by Cyclone itself, ensuring continued compatibility. Cyclone objects can also be stored in a relational database CycloneDB. Queries can be written in SQL, and in an intuitive and concise object-oriented query language, Hibernate Query Language (HQL). In addition, Cyclone interfaces easily with Java software including the Eclipse IDE for HQL edition, the Jung API for graph algorithms or Cytoscape for graph visualization.Availability: Cyclone is freely available under an open source license at: http://sourceforge.net/projects/nemo-cycloneContact: cyclone@genoscope.cns.frSupplementary information: For download and installation instructions, tutorials, use cases and examples, see http://nemo-cyclone.sourceforge.net |
| Databáze: | OpenAIRE |
| Externí odkaz: |
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