References

  1. Hernandez RD, Williamson SH, Bustamante CD (2007) Context dependence, ancestral misidentification, and spurious signatures of natural selection. Mol Biol Evol 24: 1792–1800. DOI: 10.1093/molbev/msm108
  2. Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38: 1358–1370. DOI: 10.1111/j.1558-5646.1984.tb05657.x
  3. Gutenkunst RN, Hernandez RD, Williams SH, Bustamante CD (2009) Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data. PLoS Genet 5: e1000695. DOI: 10.1371/journal.pgen.1000695
  4. Pierce DA, Schafer DW (1986) Residuals in generalized linear models. J Am Stat Assoc 81: 977–986. DOI: 10.1080/01621459.1986.10478361
  5. Ku HH (1966) Notes on the use of propagation of error formulas. J Res Nbs C Eng Inst 70: 263–273. Link
  6. Coffman AJ, Hsieh P, Gravel S, Gutenkunst RN (2016) Computationally efficient composite likelihood statistics for demographic inference. Mol Biol Evol 33: 591–593. DOI: 10.1093/molbev/msv255
  7. Self SG, Liang KY (1987) Asymptotic properties of maximum likelihood estimates and likelihood ratio tests under nonstandard conditions. J Am Stat Assoc 82: 605–610. DOI: 10.2307/2289471
  8. Kim BY, Huber CD, Lohmueller KE (2017) Inference of the distribution of selection coefficients for new nonsynonymous mutations using large samples. Genetics 206: 345. DOI: 10.1534/genetics.116.197145
  9. Ortega-Del Vecchyo D, Marsden CD, Lohmueller KE (2016) Prefersim: Fast simulation of demography and selection under the poisson random field model. Bioinformatics 32: 3516–3518. DOI: 10.1093/bioinformatics/btw478
  10. Haller BC, Messer PW (2017) Slim 2: Flexible, interactive forward genetic simulations. Mol Biol Evol 34: 230–240. DOI: 10.1093/molbev/msw211