Title
sstar: A Python Package for Detecting Archaic Introgression from Population Genetic Data with <i>S</i>*
Author
Patricia Kruisz
Department of Bio Data Science, Faculty of Engineering, University of Applied Sciences Wiener Neustadt
Abstract
S* is a widely used statistic for detecting archaic admixture from population genetic data. Previous studies used freezing-archer to apply S*, which is only directly applicable to the specific case of Neanderthal and Denisovan introgression in Papuans. Here, we implemented sstar for a more general purpose. Compared with several tools, including SPrime, SkovHMM, and ArchaicSeeker2.0, for detecting introgressed fragments with simulations, our results suggest that sstar is robust to differences in demographic models, including ghost introgression and two-source introgression. We believe sstar will be a useful tool for detecting introgressed fragments in various scenarios and in non-human species.
Keywords
introgressionarchaic admixtureS*Python
Object type
Language
English [eng]
Persistent identifier
https://phaidra.univie.ac.at/o:1633046
Appeared in
Title
Molecular Biology and Evolution
Volume
39
Issue
11
ISSN
0737-4038
Issued
2022
Publisher
Oxford University Press (OUP)
Date issued
2022
Access rights
Rights statement
© The Author(s) 2022
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