NAM: association studies in multiple populations

MOTIVATION: Mixed linear models provide important techniques for performing genome-wide association studies. However, current models have pitfalls associated with their strong assumptions. Here, we propose a new implementation designed to overcome some of these pitfalls using an empirical Bayes algorithm. RESULTS: Here we introduce NAM, an R package that allows user to take into account prior information regarding population stratification to relax the linkage phase assumption of current methods. It allows markers to be treated as a random effect to increase the resolution, and uses a sliding-window strategy to increase power and avoid double fitting markers into the model. AVAILABILITY AND IMPLEMENTATION: NAM is an R package available in the CRAN repository. It can be installed in R by typing install.packages ('NAM'). CONTACT: [email protected]. SUPPLEMENTARY INFORMATION: Supplementary date are available at Bioinformatics online.

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