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Back to BaySICS: A User-Friendly Program for Bayesian Statistical Inference from Coalescent Simulations
Stockholm University, Faculty of Science, Department of Zoology. Swedish Museum of National History, Sweden.
Stockholm University, Faculty of Science, Department of Zoology. Swedish Museum of National History, Sweden.ORCID iD: 0000-0001-7382-7509
2014 (English)In: PLoS ONE, ISSN 1932-6203, Vol. 9, no 5, e98011- p.Article in journal (Refereed) Published
Abstract [en]

Inference of population demographic history has vastly improved in recent years due to a number of technological and theoretical advances including the use of ancient DNA. Approximate Bayesian computation (ABC) stands among the most promising methods due to its simple theoretical fundament and exceptional flexibility. However, limited availability of user-friendly programs that perform ABC analysis renders it difficult to implement, and hence programming skills are frequently required. In addition, there is limited availability of programs able to deal with heterochronous data. Here we present the software BaySICS: Bayesian Statistical Inference of Coalescent Simulations. BaySICS provides an integrated and user-friendly platform that performs ABC analyses by means of coalescent simulations from DNA sequence data. It estimates historical demographic population parameters and performs hypothesis testing by means of Bayes factors obtained from model comparisons. Although providing specific features that improve inference from datasets with heterochronous data, BaySICS also has several capabilities making it a suitable tool for analysing contemporary genetic datasets. Those capabilities include joint analysis of independent tables, a graphical interface and the implementation of Markov-chain Monte Carlo without likelihoods.

Place, publisher, year, edition, pages
2014. Vol. 9, no 5, e98011- p.
National Category
Biological Sciences
Research subject
Systematic Zoology
URN: urn:nbn:se:su:diva-105917DOI: 10.1371/journal.pone.0098011ISI: 000336914100029OAI: diva2:733260
Swedish Research CouncilFormas


Available from: 2014-07-08 Created: 2014-07-08 Last updated: 2014-11-07Bibliographically approved

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Sandoval-Castellanos, EdsonPalkopoulou, Eleftheria
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