RT Journal Article
SR Electronic
T1 Faster inference of complex demographic models from large allele frequency spectra
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2024.03.26.586844
DO 10.1101/2024.03.26.586844
A1 Dilber, Enes
A1 Terhorst, Jonathan
YR 2024
UL http://biorxiv.org/content/early/2024/03/29/2024.03.26.586844.abstract
AB We present momi3, a new method for inferring complex demographic models using genetic variation data sampled from many populations. momi3 features many improvements over its predecessor momi2 (Kamm, Terhorst, Durbin, et al., 2020), including support for continuous migration, just-in-time compilation, and execution on GPUs; a standardized interface for specifying demographic models; and a novel importance sampling strategy that enables it to efficiently analyze data from a large number of samples. Together, these improvements lead to speedups of as much as 1000× over existing state-of-the-art methods such as ∂a∂i, moments, and momi2. We illustrate the usefulness of our method by revisiting a model of archaic admixture using a large, recent dataset containing hundreds of human genomes from many populations.Competing Interest StatementThe authors have declared no competing interest.