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Arizona State University
- Tempe, AZ
- in/carmen-webster-563340191
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principal_components
principal_components PublicA 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
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run_admixture
run_admixture PublicA series of scripts that calculate and plot admixture and cross validation statistics for K=1-15.
Shell 1
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webster_thesis
webster_thesis PublicScripts developed for parsing and analyzing genetic variation in a specific gene family with VCFs and FASTAs.
Python
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VCF_quality_filter
VCF_quality_filter PublicThe 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
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