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

Original publication

DOI

10.1093/bioinformatics/btm108

Type

Journal article

Journal

Bioinformatics (Oxford, England)

Publication Date

05/2007

Volume

23

Pages

1294 - 1296

Addresses

Department of Epidemiology and Biostatistics, Erasmus MC Rotterdam, Postbus 2040, 3000 CA Rotterdam, The Netherlands. i.aoultchenko@erasmusmc.nl

Keywords

Humans, Oligonucleotide Array Sequence Analysis, Computational Biology, Haplotypes, Polymorphism, Single Nucleotide, Gene Library, Genome, Genome, Human, Computer Simulation, Software, Information Storage and Retrieval