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A tutorial on how (not) to over-interpret STRUCTURE/ADMIXTURE bar plots

Daniel Falush, Lucy van Dorp, Daniel J Lawson
doi: https://doi.org/10.1101/066431
Daniel Falush
1Milner Centre for Evolution, University of Bath.
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  • For correspondence: danielfalush@googlemail.com
Lucy van Dorp
2University College London. Dept. Genetics, Evolution and Environment. London, UK.
3Centre for Mathematics and Physics in the Life Sciences and Experimental Biology (CoMPLEX), University College London. London, UK.
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Daniel J Lawson
4University of Bristol, School of Social and Community Medicine, Bristol, UK.
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Abstract

Genetic clustering algorithms, implemented in popular programs such as STRUCTURE and ADMIXTURE, have been used extensively in the characterisation of individuals and populations based on genetic data. A successful example is reconstruction of the genetic history of African Americans who are a product of recent admixture between highly differentiated populations. Histories can also be reconstructed using the same procedure for groups which do not have admixture in their recent history, where recent genetic drift is strong or that deviate in other ways from the underlying inference model. Unfortunately, such histories can be misleading. We have implemented an approach (available at www.paintmychromsomes.com) to assessing the goodness of fit of the model using the ancestry “palettes” estimated by CHROMOPAINTER and apply it to both simulated and real examples. Combining these complementary analyses with additional methods that are designed to test specific hypothesis allows a richer and more robust analysis of recent demographic history based on genetic data.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted July 28, 2016.
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A tutorial on how (not) to over-interpret STRUCTURE/ADMIXTURE bar plots
Daniel Falush, Lucy van Dorp, Daniel J Lawson
bioRxiv 066431; doi: https://doi.org/10.1101/066431
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A tutorial on how (not) to over-interpret STRUCTURE/ADMIXTURE bar plots
Daniel Falush, Lucy van Dorp, Daniel J Lawson
bioRxiv 066431; doi: https://doi.org/10.1101/066431

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