qgg: an R package for large-scale quantitative genetic analyses

Abstract

SummaryStudies of complex traits and diseases are strongly dependent on the availability of user-friendly software designed to handle large-scale genetic and phenotypic data. Here, we present the R package qgg, which provides an environment for large-scale genetic analyses of quantitative traits and disease phenotypes. The qgg package provides an infrastructure for efficient processing of large-scale genetic data and functions for estimating genetic parameters, performing single and multiple marker association analyses, and genomic-based predictions of phenotypes. In particular, we have developed novel predictive models that use information on functional features of the genome that enables more accurate predictions of complex trait phenotypes. We illustrates core facilities of the qgg package by analysing human standing height from the UK Biobank.\n\nAvailability and implementationThe R package qgg is freely available. For latest updates, user guides and example scripts, consult the main page http://psoerensen.github.io/qgg/.