DocumentCode :
2807017
Title :
Towards a MOLGENIS Based Computational Framework
Author :
Byelas, Heorhiy ; Kanterakis, Alexandros ; Swertz, Morris
Author_Institution :
Univ. of Groningen, Groningen, Netherlands
fYear :
2011
fDate :
9-11 Feb. 2011
Firstpage :
331
Lastpage :
338
Abstract :
High-throughput bioinformatics research is complex and requires the combination of multiple experimental approaches each producing large amounts of diverse data. The analysis and evaluation of these data are equally complex requiring specific integrations of various software components into complex workflows. The challenge is to provide less technically involved bioinformaticians with simple interfaces to specify the workflow of commands they need while at the same time scale up to hundreds of jobs to get the terabytes of genetic data processed by recent methods. Here, we present a computational framework for bioinformatics which enables data and workflow management in a distributed computational environment. Firstly, we propose a new data model to specify workflow execution logic on available network resources and components. Our model extends existing generic workflow and bioinformatics models to describe workflows compactly and unambiguously. Secondly, we present the implementation of our computational framework, which is constructed as a computational cloud for bioinformatics using open source off-the-shelf components. Finally, we demonstrate applications of the framework on complex real-world bioinformatics tasks.
Keywords :
bioinformatics; object-oriented programming; workflow management software; MOLGENIS based computational framework; bioinformatics; data model; distributed computational environment; open source off-the-shelf component; software component integration; workflow execution logic; workflow management; Bioinformatics; Biological system modeling; Computational modeling; Data models; Databases; Servers; User interfaces; Bioinformatics; computational cloud; workflow management system;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Parallel, Distributed and Network-Based Processing (PDP), 2011 19th Euromicro International Conference on
Conference_Location :
Ayia Napa
ISSN :
1066-6192
Print_ISBN :
978-1-4244-9682-2
Type :
conf
DOI :
10.1109/PDP.2011.53
Filename :
5739032
Link To Document :
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