Testing species boundaries in Polylepis

Here you will find raw files to test species boundaries in Polylepis using SNP only dataset called using dDocent. The vcf file contains the 15154 unliked SNPs. The gl.nex and gl.phy are inputs for phylogenetic analyses while the genpofad_for_splitree.phy is the distance matrix for network analyses. The .R files are used to conduct population genetic analyses, and generate input files for phylogenetic and network analyses, and to validate ADMIXTURE results. The .sh files are SLURM scripts and are numbered according to order of application.