Table 1 Notation for parameters used throughout the manuscript
Parameter | Description |
|---|---|
\(j \,=\, 1,\ldots , M\) | Index over number of SNPs, M |
\(i\,=\, 1,\ldots , N\) | Index over number of samples, N |
\(r_{ij}, \ n_{ij}\) | Reference/non-reference read count data in sample i at variant j |
\(d_{ij}\,=\, (r_{ij},n_{ij})\) | Read count data in sample i at variant j |
\(p_j\) (\(\widehat{p}_j\)) | Population-level non-reference allele frequency for SNP j (estimate) |
\(p_{ij}\),\((\widehat{p}_{ij})\) | Within-sample non-reference allele frequency for SNP j in sample i (estimate) |
\(f_i\) | Inbreeding coefficient for sample i |
\(H_o(b,i)\) | Observed heterozygosity for sample i in bin b |
\(H_e(b)\) | Expected heterozygosity for bin b |
\(\widehat{f}^{*}_i\) | Estimator of \(f_i\) by method \(*\). |
\(\ {f}, \ {p}\) | Vector of \(f_i\) and \(p_j\)’s in Bayesian model |