dadi.CUDA: Accelerating Population Genetics Inference with Graphics Processing Units

dadi is a popular but computationally intensive program for inferring models of demographic history and natural selection from population genetic data. I show that running dadi on a Graphics Processing Unit can dramatically speed computation compared with the CPU implementation, with minimal user bu...

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Detalles Bibliográficos
Autor principal: Gutenkunst, Ryan N
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Resources
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8097298/
https://www.ncbi.nlm.nih.gov/pubmed/33480999
http://dx.doi.org/10.1093/molbev/msaa305
Descripción
Sumario:dadi is a popular but computationally intensive program for inferring models of demographic history and natural selection from population genetic data. I show that running dadi on a Graphics Processing Unit can dramatically speed computation compared with the CPU implementation, with minimal user burden. Motivated by this speed increase, I also extended dadi to four- and five-population models. This functionality is available in dadi version 2.1.0, https://bitbucket.org/gutenkunstlab/dadi/.

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