TASSLEgeno15239Ind237vfinal_genotype.hmp

The input file of genotypes for the program TASSLE which was used to perform the univariate GWAS for this study

Genotypes

Genotypes: Individual genotypes for each sample at each of the 19,703 loci. Sample ID is population abbreviation (see Table 1) followed by "xXXX", where XXX is a three digit numerical identifier

LOSITAN-Rangewide

Input file for Lositan for all populations, 19,703 SNP

Ots_RADcatalog_21504SNPs

Pre-filtered RAD catalog of 21,504 SNP

Mantel-Hecht-Moran FST full matrices

Input files for Mantel test between Hecht Fst values and Moran et al. (2013) Fst values. Each set of Fst values are included in full matrix format in separate tabs of the Excel file. See Table S2 for corresponding triangular matrices and results of Mantel tests

Hardy Weinberg equilibrium

Hardy Weinberg equilibrium: Locus summary by population including estimates of the genotyping success rate (GSR), the P-value from a chi-square test of the deviation from Hardy-Weinberg Equilibrium (HWE, * reported is the raw uncorrected p-value, the Bonferroni threshold p-value for 19,703 comparisons at α=0.05 level is 0.05/19703 = 0.00000254), the observed heterozygosity (Ho), the expected heterozygosity based on HWE (He), and the minor allele (Q) frequency (MAF). Populations are numbered according to Table 1, and the colored font corresponds to the lineage of the population (blue, North Coastal Lineage; red, South Coastal Lineage; green, Interior Columbia River Stream-Type Lineage)

RDA_AlleleFreq

Input file of allele frequencies for 19,703 SNPs for RD

GENEPOP-Rangewide_NeutralSNPs

Input file for GENEPO

PCA-adegenet_neutralSNPs

Input file for PCA in adgenet for all populations; 5,007 putatively adaptive SNP

RDA_BIOCLIMDATA

Input file of environmental factors included for RD