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ChaochihLiu edited this page Oct 27, 2015
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ANGSD-wrapper is a project that attempts to streamline analysis in ANGSD with reproducibility and ease of use in mind. ANGSD-wrapper implements the following methods and calculations in ANGSD: Tajima's D, Thetas, Genotype Likelihoods, Admixture, Principle Components Analysis (PCA), Fst, Site Frequency Spectrums (SFS), (2D) site frequency spectrums, inbreeding coefficients, ABBA BABA, and ancestral sequences.
ANGSD-wrapper also has user friendly graphing utilites. Users can either print out simple pdf plots of the data or use Shiny Graphing for an interactive version of the plots.