Note: P-values were adjusted for multiple testing using the Benjamini and Hochberg (1995) false discovery rate and then transformed with -Log10(P). The -Log10(P) values were shaded light to dark to indicate critical values of 1.3, 2.0, and 3.0 corresponding to alpha levels of 0.050, 0.010, and 0.001, respectively. Included in this table are the total number of loci (N) genotyped on each chromosome, the number of loci with significant adjusted P-values (P N), and the “average” and “range” of -Log10(P) values across loci with significant adjusted P-values. The adjusted -Log10(P) values for representative candidate SNP Etr_4281 are provided for chromosomes 22. Any chromosome with significant adjusted P-values not on the four “major” adaptive chromosomes 1, 2, 4, and 22 are listed as “other” chromosomes.
Table S10. Generalized Multifactor Dimensionality Reduction for egg mass and total length, including the number of loci, SNPs in the model, cross-validation consistency, and testing balanced accuracy.