Generating samples under a Wright-Fisher neutral model of genetic variation.
TL;DR: A Monte Carlo computer program is available to generate samples drawn from a population evolving according to a Wright-Fisher neutral model, and the samples produced can be used to investigate the sampling properties of any sample statistic under these neutral models.
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Abstract: A Monte Carlo computer program is available to generate samples drawn from a population evolving according to a Wright-Fisher neutral model. The program assumes an infinite-sites model of mutation, and allows recombination, gene conversion, symmetric migration among subpopulations, and a variety of demographic histories. The samples produced can be used to investigate the sampling properties of any sample statistic under these neutral models.
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References
Numerical recipes in C
William H. Press,Saul A. Teukolsky,William T. Vetterling,Brian P. Flannery +3 more
- 01 Jan 1994
TL;DR: The Diskette v 2.06, 3.5''[1.44M] for IBM PC, PS/2 and compatibles [DOS] Reference Record created on 2004-09-07, modified on 2016-08-08.
Properties of a neutral allele model with intragenic recombination.
TL;DR: An infinite-site neutral allele model with crossing-over possible at any of an infinite number of sites is studied and the effect of intragenic recombination on the homozygosity test of Watterson and on the number of unique alleles in a sample is determined.
886
•Book
Mathematical Population Genetics
Warren J. Ewens
- 01 Jan 1979
TL;DR: In this paper, the authors present a model based on the Wright-Fisher In.nitely Many Alleles Model and the Cannings (Exchangeable) Model: Two-Alleles 3.4.