When compared to PRSice, PRSice-2 streamlines the entire PRS analysis pipeline without generating intermediate files, and performs all the main computations in C++, leading to a drastic speed-up in run time and reduction in memory burden (see Supplementary Fig. 1). Extraction and exclusion of samples and SNPs are also implemented, allowing PRS analysis to be performed directly on a subset of the input data without performing pre-filtering.
