- Poster presentation
- Open Access
Creating chemo- and bioinformatics workflows, further developments within the CDK-Taverna Project
https://doi.org/10.1186/1752-153X-3-S1-P42
© Kuhn et al; licensee BioMed Central Ltd. 2009
- Published: 05 June 2009
Keywords
- Large Dataset
- Cluster Result
- Soft Computing
- Chemistry Development
- Current Development
The CDK-Taverna project aims at building an open-source pipelining solution through combination of different open-source projects such as Taverna [1] the Chemistry Development Kit (CDK) [2] and Bioclipse [3].
Pipelining or workflow tools allow for the Lego™-like, graphical assembly of I/O modules and algorithms into a complex workflow which can be easily deployed, modified and tested without the hassle of implementing it into a monolithic application. Current developments in CDK-Taverna focus on a soft computing framework which allows a flexible use of different methods from, for example, the WEKA [4] library. Additionally an implementation of the ART2a [5] algorithm is added as worker and could be used for cluster purposes. Worker which analyse and compare the cluster results are also implemented. Pgchem::Tigress [6] a chemoinformatic cartridge for a PostgresSQL database is used to allow the handling of large datasets. Therefore a number of worker for adding, selection and searching molecules from and on the database are added.
Authors’ Affiliations
References
- Oinn T, Addis M, Ferris M, Marvin D, Senger M, Greenwood M, Carver T, Glover K, Pocock M, Wipat A, Li P: Taverna: A tool for the composition and enactment of bioinformatics workflows. Bioinformatics. 2004, 20 (17): 3045-3054. 10.1093/bioinformatics/bth361.View ArticleGoogle Scholar
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- Spjuth O, Helmus T, Willighagen EL, Kuhn S, Eklund M, et al: Bioclipse: An open rich client workbench for chemo-and bioinformatics.Google Scholar
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Copyright
This article is published under license to BioMed Central Ltd.
