- POP-TOOLS for conducting genetic association studies on phenotypes predicted by machine learning.
- PIGEON for performing polygenic gene-environment (GxE) interactions inference.
- PSPS for making statistically rigorous scientific discoveries using machine learning predictions.
- X-Wing for improving genetic risk prediction in ancestrally-diverse populations.
- QUAIL for mapping genetic loci associated with phenotypic variability.
- PSPA for machine learning-assited infernece on Z-estimation problems.