Implements a popular cis-QTL mapping strategy in a user- and cluster-friendly tool. FastQTL also proposes an efficient permutation procedure to control for multiple testing. The outcome of permutations is modeled using beta distributions trained from a few permutations and from which adjusted p-values can be estimated at any level of significance with little computational cost. FastQTL also provides a modular base onto which new functionalities are being implemented, such as fine mapping of causal variants, conditional analysis to discover multiple independent QTLs per phenotype and interaction analysis to discover sex or disease specific QTLs.
