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Bioinformatics Advance Access published online on March 23, 2007
Bioinformatics, doi:10.1093/bioinformatics/btm108
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GenABEL: an R library for genome-wide association analysis

Yurii S. Aulchenko 1,*, Stephan Ripke 2, Aaron Isaacs 1 and Cornelia M. van Duijn 1

1Department of Epidemiology & Biostatistics, Erasmus MC Rotterdam, Postbus 2040, 3000 CA Rotterdam, The Netherlands
2Statistical Genetics Group, Max-Planck-Institute of Psychiatry, Kraepelinstr. 10, D-80804 Munich, Germany

*To whom correspondence should be addressed. Yurii S. Aulchenko, E-mail: i.aoultchenko{at}erasmusmc.nl


  Abstract

Here we describe an R library for genome-wide association (GWA) analysis. It implements effective storage and handling of GWA data, fast procedures for genetic data quality control, testing of association of single nucleotide polymorphisms with binary or quantitative traits, visualization of results, and also provides easy interfaces to standard statistical and graphical procedures implemented in base R and special R libraries for genetic analysis. We evaluated GenABEL using one simulated and two real data sets. We conclude that GenABEL enables the analysis of GWA data on desktop computers.

Availability: http://cran.r-project.org

Associate Editor: Prof. Martin Bishop

Received on December 3, 2006; revised on February 14, 2007; accepted on March 13, 2007

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