Title: | PRSice-2: Polygenic Risk Score software for biobank-scale data |
Journal: | GigaScience |
Published: | 1 Jul 2019 |
Pubmed: | https://pubmed.ncbi.nlm.nih.gov/31307061/ |
DOI: | https://doi.org/10.1093/gigascience/giz082 |
Title: | PRSice-2: Polygenic Risk Score software for biobank-scale data |
Journal: | GigaScience |
Published: | 1 Jul 2019 |
Pubmed: | https://pubmed.ncbi.nlm.nih.gov/31307061/ |
DOI: | https://doi.org/10.1093/gigascience/giz082 |
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RESULTS: Here we introduce PRSice-2, an efficient and scalable software program for automating and simplifying PRS analyses on large-scale data. PRSice-2 handles both genotyped and imputed data, provides empirical association P-values free from inflation due to overfitting, supports different inheritance models, and can evaluate multiple continuous and binary target traits simultaneously. We demonstrate that PRSice-2 is dramatically faster and more memory-efficient than PRSice-1 and alternative PRS software, LDpred and lassosum, while having comparable predictive power.
CONCLUSION: PRSice-2's combination of efficiency and power will be increasingly important as data sizes grow and as the applications of PRS become more sophisticated, e.g., when incorporated into high-dimensional or gene set-based analyses. PRSice-2 is written in C++, with an R script for plotting, and is freely available for download from http://PRSice.info.
Enabling scientific discoveries that improve human health