Evaluating ARG-estimation methods in the context of estimating population-mean polygenic score histories.

ABSTRACT: Scalable methods for estimating marginal coalescent trees across the genome present new opportunities for studying evolution and have generated considerable excitement, with new methods extending scalability to thousands of samples. Benchmarking of the available methods has revealed general tradeoffs between accuracy and scalability, but performance in downstream applications has not always been easily predictable from general performance measures, suggesting that specific features of the ARG may be important for specific downstream applications of estimated ARGs. To exemplify this point, we benchmark ARG estimation methods with respect to a specific set of methods for estimating the historical time course of a population-mean polygenic score (PGS) using the marginal coalescent trees encod

SUBMITTER: Peng D 

PROVIDER: S-EPMC11160635 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature