GenABEL: an R library for genome-wide association analysis

Yurii S Aulchenko; Stephan Ripke; Aaron Isaacs; Cornelia M van Duijn

doi:10.1093/bioinformatics/btm108

GenABEL: an R library for genome-wide association analysis

Bioinformatics. 2007 May 15;23(10):1294-6. doi: 10.1093/bioinformatics/btm108. Epub 2007 Mar 23.

Authors

Yurii S Aulchenko¹, Stephan Ripke, Aaron Isaacs, Cornelia M van Duijn

Affiliation

¹ Department of Epidemiology and Biostatistics, Erasmus MC Rotterdam, Postbus 2040, 3000 CA Rotterdam, The Netherlands. i.aoultchenko@erasmusmc.nl

PMID: 17384015
DOI: 10.1093/bioinformatics/btm108

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.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

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