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A Master-Slave MPI Approach for NGS Data Mining

By Riccardo Zanella

Abstract

Next-Generation Sequencing (NGS) platforms can sequence a full human genome in previously unimagined speed. High-dimensional data produced must be filtered and annotated in order to be effective and of functional com- prehension to end-users. Among public software packages, GAMES aims to reduce the complexity in large scale DNA projects by filtering and annotation procedures. Devel- oped in Perl language and available as open-source, the tool can be fruitfully adopted for small input data. We developed a C++ MPI version, based on Master/Slave pattern, in order to exploit the embarrassingly parallel nature of the NGS filtering problem, thus providing an efficient tool to the bioinformatic community

Topics: MPI, NGS Sequencing, Master/Slave pattern
Publisher: CSREA Press
Year: 2014
OAI identifier: oai:iris.unife.it:11392/2166413
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