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Supporting parallel R code in clinical trials: A grid-based approach

 
: Wegener, D.; Sengstag, T.; Sfakianakis, S.; Rüping, S.

:
Fulltext urn:nbn:de:0011-n-870771 (200 KByte PDF)
MD5 Fingerprint: 2d5cca4c3c7f1ead7ea38a31d9c340dd
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Created on: 14.1.2009


Institute of Electrical and Electronics Engineers -IEEE-:
ISPA 2008, International Symposium on Parallel and Distributed Processing with Applications : Workshop on High Performance and Grid Computing in Medicine and Biology (HiPGCoMB-08), Sydney, Australia, 10-12 December 2008
Piscataway, NJ: IEEE, 2008
ISBN: 978-0-7695-3471-8
pp.823-828
International Symposium on Parallel and Distributed Processing with Applications (ISPA) <2008, Sydney>
Workshop on High Performance and Grid Computing in Medicine and Biology (HiPGCoMB) <2008, Sydney>
English
Conference Paper, Electronic Publication
Fraunhofer IAIS ()

Abstract
In this paper, we describe an extension to the ACGT GridR environment which allows the parallelization of loops in R scripts in view of their distributed execution on a computational grid. The ACGT GridR service is extended by a component that uses a set of preprocessor-like directives to organize and distribute calculations. The use of parallelization directives as special R comments provides users with the potential to accelerate lengthy calculations with changes to preexisting code. The GridR service and its extension are developed as components of the ACGT platform, one aim of which is to facilitate the data mining of clinical trials involving large datasets. In ACGT, GridR scripts are executed in the framework of a specifically developed workflow environment, which is also briefly outlined in the present article.

: http://publica.fraunhofer.de/documents/N-87077.html