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  • run_admixture Public

    A series of scripts that calculate and plot admixture and cross validation statistics for K=1-15.

    Shell 1 Updated May 8, 2024

  • principal_components Public

    A series of documents that call VCFtools (Danecek et al., 2011) and Plink 1.9 beta to calculate principal components for a given VCF and plot the results.

    R 1 Updated Feb 23, 2024

  • webster_thesis Public

    Scripts developed for parsing and analyzing genetic variation in a specific gene family with VCFs and FASTAs.

    Python Updated Mar 29, 2023

  • VCF_quality_filter Public

    The following scripts and commands calculate and display statistics for a raw VCF, then filters the VCF for quality, depth, and missingness at given thresholds.

    R Updated Mar 23, 2023
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