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- Title
Real-world comparison of CPU and GPU implementations of SNPrank: a network analysis tool for GWAS.
- Authors
Davis, Nicholas A; Pandey, Ahwan; McKinney, B A
- Abstract
Bioinformatics researchers have a variety of programming languages and architectures at their disposal, and recent advances in graphics processing unit (GPU) computing have added a promising new option. However, many performance comparisons inflate the actual advantages of GPU technology. In this study, we carry out a realistic performance evaluation of SNPrank, a network centrality algorithm that ranks single nucleotide polymorhisms (SNPs) based on their importance in the context of a phenotype-specific interaction network. Our goal is to identify the best computational engine for the SNPrank web application and to provide a variety of well-tested implementations of SNPrank for Bioinformaticists to integrate into their research.
- Publication
Bioinformatics (Oxford, England), 2011, Vol 27, Issue 2, p284
- ISSN
1367-4811
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/btq638