Conveyor: a workflow engine for bioinformatic analyses
Linke B, Giegerich R, Goesmann A (2011)
Bioinformatics 27(7): 903-911.
Zeitschriftenaufsatz
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Einrichtung
Centrum für Biotechnologie > Technologieplattformen > Bioinformatics Resource Facility
Centrum für Biotechnologie > Arbeitsgruppe R. Giegerich
Centrum für Biotechnologie > Institut für Bioinformatik
Technische Fakultät > AG Praktische Informatik
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Technische Fakultät > Computational Genomics
Centrum für Biotechnologie > Arbeitsgruppe R. Giegerich
Centrum für Biotechnologie > Institut für Bioinformatik
Technische Fakultät > AG Praktische Informatik
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Technische Fakultät > Computational Genomics
Abstract / Bemerkung
Motivation: The rapidly increasing amounts of data available from new high-throughput methods have made data processing without automated pipelines infeasible. As was pointed out in several publications, integration of data and analytic resources into workflow systems provides a solution to this problem, simplifying the task of data analysis. Various applications for defining and running workflows in the field of bioinformatics have been proposed and published, e. g. Galaxy, Mobyle, Taverna, Pegasus or Kepler. One of the main aims of such workflow systems is to enable scientists to focus on analysing their datasets instead of taking care for data management, job management or monitoring the execution of computational tasks. The currently available workflow systems achieve this goal, but fundamentally differ in their way of executing workflows.
Results: We have developed the Conveyor software library, a multitiered generic workflow engine for composition, execution and monitoring of complex workflows. It features an open, extensible system architecture and concurrent program execution to exploit resources available on modern multicore CPU hardware. It offers the ability to build complex workflows with branches, loops and other control structures. Two example use cases illustrate the application of the versatile Conveyor engine to common bioinformatics problems.
Erscheinungsjahr
2011
Zeitschriftentitel
Bioinformatics
Band
27
Ausgabe
7
Seite(n)
903-911
ISSN
1367-4803
eISSN
1460-2059
Page URI
https://pub.uni-bielefeld.de/record/2093578
Zitieren
Linke B, Giegerich R, Goesmann A. Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics. 2011;27(7):903-911.
Linke, B., Giegerich, R., & Goesmann, A. (2011). Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics, 27(7), 903-911. https://doi.org/10.1093/bioinformatics/btr040
Linke, Burkhard, Giegerich, Robert, and Goesmann, Alexander. 2011. “Conveyor: a workflow engine for bioinformatic analyses”. Bioinformatics 27 (7): 903-911.
Linke, B., Giegerich, R., and Goesmann, A. (2011). Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics 27, 903-911.
Linke, B., Giegerich, R., & Goesmann, A., 2011. Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics, 27(7), p 903-911.
B. Linke, R. Giegerich, and A. Goesmann, “Conveyor: a workflow engine for bioinformatic analyses”, Bioinformatics, vol. 27, 2011, pp. 903-911.
Linke, B., Giegerich, R., Goesmann, A.: Conveyor: a workflow engine for bioinformatic analyses. Bioinformatics. 27, 903-911 (2011).
Linke, Burkhard, Giegerich, Robert, and Goesmann, Alexander. “Conveyor: a workflow engine for bioinformatic analyses”. Bioinformatics 27.7 (2011): 903-911.
Daten bereitgestellt von European Bioinformatics Institute (EBI)
18 Zitationen in Europe PMC
Daten bereitgestellt von Europe PubMed Central.
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