These are the data and scripts associated with the manuscript.

biogeography_whitefish.Rmd is a markdown file with scripts for demultiplexing, trimming, aligning to reference genome, STACKS, and all the analyses in the manuscript.

pop_gen_vcf folder contains the vcf file used in the PCA, Admixture, DAPC, Fst calculation, treemix and phylogenetic reconstruction.

vcf_pop_file.txt is the associated population map