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rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)

The availability of whole genome sequencing data from multiple related populations creates opportunities to test sophisticated population genetic models of convergent adaptation. Recent work by Lee and Coop (2017) developed models to infer modes of convergent adaption at local genomic scales, provid...

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Detalles Bibliográficos
Autor principal: Tittes, Silas
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Genetics Society of America 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7467004/
https://www.ncbi.nlm.nih.gov/pubmed/32680854
http://dx.doi.org/10.1534/g3.120.401527
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author Tittes, Silas
author_facet Tittes, Silas
author_sort Tittes, Silas
collection PubMed
description The availability of whole genome sequencing data from multiple related populations creates opportunities to test sophisticated population genetic models of convergent adaptation. Recent work by Lee and Coop (2017) developed models to infer modes of convergent adaption at local genomic scales, providing a rich framework for assessing how selection has acted across multiple populations at the tested locus. Here I present, rdmc, an R package that builds on the existing software implementation of Lee and Coop (2017) that prioritizes ease of use, portability, and scalability. I demonstrate installation and comprehensive overview of the package’s current utilities.
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spelling pubmed-74670042020-09-14 rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017) Tittes, Silas G3 (Bethesda) Software and Data Resources The availability of whole genome sequencing data from multiple related populations creates opportunities to test sophisticated population genetic models of convergent adaptation. Recent work by Lee and Coop (2017) developed models to infer modes of convergent adaption at local genomic scales, providing a rich framework for assessing how selection has acted across multiple populations at the tested locus. Here I present, rdmc, an R package that builds on the existing software implementation of Lee and Coop (2017) that prioritizes ease of use, portability, and scalability. I demonstrate installation and comprehensive overview of the package’s current utilities. Genetics Society of America 2020-07-17 /pmc/articles/PMC7467004/ /pubmed/32680854 http://dx.doi.org/10.1534/g3.120.401527 Text en Copyright © 2020 Tittes et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software and Data Resources
Tittes, Silas
rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title_full rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title_fullStr rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title_full_unstemmed rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title_short rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)
title_sort rdmc: an open source r package implementing convergent adaptation models of lee and coop (2017)
topic Software and Data Resources
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7467004/
https://www.ncbi.nlm.nih.gov/pubmed/32680854
http://dx.doi.org/10.1534/g3.120.401527
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