dadi-cli: Automated and distributed population genetic model inference from allele frequency spectra

SUMMARY: dadi is a popular software package for inferring models of demographic history and natural selection from population genomic data. But using dadi requires Python scripting and manual parallelization of optimization jobs. We developed dadi-cli to simplify dadi usage and also enable straighfo...

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Detalles Bibliográficos
Autores principales: Huang, Xin, Struck, Travis J., Davey, Sean W., Gutenkunst, Ryan N.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2023
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10312675/
https://www.ncbi.nlm.nih.gov/pubmed/37398279
http://dx.doi.org/10.1101/2023.06.15.545182
Descripción
Sumario:SUMMARY: dadi is a popular software package for inferring models of demographic history and natural selection from population genomic data. But using dadi requires Python scripting and manual parallelization of optimization jobs. We developed dadi-cli to simplify dadi usage and also enable straighforward distributed computing. AVAILABILITY AND IMPLEMENTATION: dadi-cli is implemented in Python and released under the Apache License 2.0. The source code is available at https://github.com/xin-huang/dadi-cli. dadi-cli can be installed via PyPI and conda, and is also available through Cacao on Jetstream2 https://cacao.jetstream-cloud.org/.

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