Correction to: Nature Genetics https://doi.org/10.1038/ng.3980, published online 30 October 2017.
In the version of this article published, in the Online Methods eight citations to supplementary material refer to the wrong supplementary items.
Published text: We therefore repeated the entire selection analysis (Figs. 3–5 and Supplementary Figs. 15–31) using the updated call set.
Correct supplementary citation: Supplementary Figs. 17–33.
Published text: We found 16–27 million SNPs segregating within taxa, corresponding to an average number of pairwise differences per site (nucleotide diversity) of 0.17–0.22% (Fig. 1c and Supplementary Fig. 7) and effective population sizes generally above 35,000 (except for aethiops, for which we estimated ~29,000).
Correct supplementary citation: Supplementary Fig. 10
Published text: Two taxon site-frequency spectra (Supplementary Fig. 9) generally showed fixed differences as well as shared and private variation, except for hilgerty–cynosorus–pygerythrus, which showed few fixed differences and highly correlated allele frequencies.
Correct supplementary citation: Supplementary Fig. 8
Published text: Next, for each of the six principal components we performed likelihood-ratio tests in R (function anova with option test = ‘LRT’) to test whether a linear model “PC ~ latitude + longitude + taxon label” gave a significantly better fit than a model using either only geography or only taxon (Supplementary Table 4).
Correct supplementary citation: Supplementary Table 2
Published text: For each pairwise comparison, we summarized FST values in minor allele frequency (MAF) bins (Supplementary Fig. 8; the maximum across MAFs is shown in Fig. 1c).
Correct supplementary citation: Supplementary Fig. 11
Published text: The software Admixture 1.23 (ref. 22) was run on autosomal SNPs filtered for MAF >5%, converted to binary .bed format using GATK VariantToBinaryPed and LD pruned using the plink flag --indep 50 10 2 (Fig. 3a and Supplementary Fig. 11).
Correct supplementary citation: Supplementary Fig. 13
Published text: Cross-coalescent rate was calculated as 2 × between/(within_1 + within_2) (Fig. 2b,c, Supplementary Figs. 12 and 13, and Supplementary Note).
Correct supplementary citation: Supplementary Figs. 15 and 16, and Supplementary Note
Published text: To test whether these scores capture biological signal, we confirmed that scores were significantly higher in genic (introns + exons) than in intergenic regions (one-sided Mann–Whitney U test, P < 10−300; Supplementary Fig. 21).
Correct supplementary citation: Supplementary Fig. 23