ArticleBMC bioinformatics2014
SMARTPOP: inferring the impact of social dynamics on genetic diversity through high speed simulations.
Article in BMC bioinformatics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Sex-linked genetic diversity originates from persistent sociocultural processes at microgeographic scales.Royal Society open science · 2019Article
- Reconstructing Demography and Social Behavior During the Neolithic Expansion from Genomic Diversity Across Island Southeast Asia.Genetics · 2016Article
- Relaxed Observance of Traditional Marriage Rules Allows Social Connectivity without Loss of Genetic Diversity.Molecular biology and evolution · 2015Article
- On some genetic consequences of social structure, mating systems, dispersal, and sampling.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
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Authors and funding
2 authors.
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Abstract
backgroundSocial behavior has long been known to influence patterns of genetic diversity, but the effect of social processes on population genetics remains poorly quantified - partly due to limited community-level genetic sampling (which is increasingly being remedied), and partly to a lack of fast simulation software to jointly model genetic evolution and complex social behavior, such as marriage rules.
resultsTo fill this gap, we have developed SMARTPOP - a fast, forward-in-time genetic simulator - to facilitate large-scale statistical inference on interactions between social factors, such as mating systems, and population genetic diversity. By simultaneously modeling genetic inheritance and dynamic social processes at the level of the individual, SMARTPOP can simulate a wide range of genetic systems (autosomal, X-linked, Y chromosomal and mitochondrial DNA) under a range of mating systems and demographic models. Specifically designed to enable resource-intensive statistical inference tasks, such as Approximate Bayesian Computation, SMARTPOP has been coded in C++ and is heavily optimized for speed and reduced memory usage.
conclusionSMARTPOP rapidly simulates population genetic data under a wide range of demographic scenarios and social behaviors, thus allowing quantitative analyses to address complex socio-ecological questions.
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