GenABEL: an R library for genome-wide association analysis

TLDR

The authors present GenABEL, an R library designed for genome‑wide association analysis. GenABEL provides efficient storage, quality‑control, SNP‑trait association testing, result visualization, and interfaces to standard R functions, and was evaluated on one simulated and two real datasets. The study demonstrates that GenABEL enables GWA analyses to be performed on desktop computers. The package is available from CRAN (http://cran.r-project.org) and can be contacted at [e-mail].

Abstract

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 Contact: [e-mail]