Allows running a metaanalysis of multivariate Genome Wide Association Studies (GWAS) and easily visualizing results through custom plotting functions. The multivariate setting implies that results for each single nucleotide polymorphism (SNP) include several effect sizes (also known as "beta coefficients", one for each trait), as well as related variance values, but also covariance between the betas. The main goal of the package is to provide combined beta coefficients across different cohorts, together with the combined variance/covariance matrix. The method is inversevariance based, thus each beta is weighted by the inverse of its variancecovariance matrix, before taking the average across all betas. The default options of the main function \code{multi_meta} will work with files obtained from GEMMA multivariate option for GWAS (Zhou & Stephens, 2014). It will work with any other output, as soon as columns are formatted to have the according names. The package also provides several plotting functions for QQplots, Manhattan Plots and custom summary plots.
Package details 


Author  Dragana Vuckovic 
Date of publication  20150115 11:44:10 
Maintainer  Dragana Vuckovic <dragana.vuckovic@burlo.trieste.it> 
License  GPL (>= 2) 
Version  0.1 
Package repository  View on CRAN 
Installation 
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