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. 2017 Jun 1;33(11):1738-1740.
doi: 10.1093/bioinformatics/btx048.

admixturegraph: an R package for admixture graph manipulation and fitting

Kalle Leppälä  1 , Svend V Nielsen  1 , Thomas Mailund  1
Affiliations

admixturegraph: an R package for admixture graph manipulation and fitting

Kalle Leppälä et al. Bioinformatics. .

Abstract

Summary: Admixture graphs generalize phylogenetic trees by allowing genetic lineages to merge as well as split. In this paper we present the R package admixturegraph containing tools for building and visualizing admixture graphs, for fitting graph parameters to genetic data, for visualizing goodness of fit and for evaluating the relative goodness of fit between different graphs.

Availability and implementation: GitHub: https://github.com/mailund/admixture_graph and CRAN: https://cran.r-project.org/web/packages/admixturegraph .

Contact: mailund@birc.au.dk .

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Figures

Fig. 1.
Fig. 1.
(a) Example data in the form of D statistics (equivalent to f4 statistics. (b) Example of graph construction and plotting code. (c) and (e) Examples of admixture graphs. (d) and (f) Goodness-of-fit of the graphs in (b) and (d)
See this image and copyright information in PMC

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