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. 2009 Oct 23;5(10):e1000695. doi: 10.1371/journal.pgen.1000695

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This is an open-access article distributed under the terms of the Creative Commons Public Domain declaration which stipulates that, once placed in the public domain, this work may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose.

This is an open-access article distributed under the terms of the Creative Commons Public Domain declaration, which stipulates that, once placed in the public domain, this work may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose.

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(A) Qualitative effects of modeled neutral genetic forces on , the density of alleles at relative frequencies and in populations 1 and 2. (B) For the spectra shown, an equilibrium population of effective size diverges into two populations generations ago. Populations 1 and 2 have effective sizes and , respectively. Migration is symmetric at per generation, and . (C) The AFS at . Each entry is colored by the logarithm of the number of sites in it, according to the scale shown. (D) The AFS at various times for various demographic parameters, on the same scale as (B). (E) Comparison between coalescent- and diffusion-based estimates of the likelihood of data generated under the model (A). Coalescent-based estimates of the likelihood, each of which took approximately 7.0 seconds, are represented in the histogram. The result from our diffusion approach, which took 2.0 seconds, is represented by the red line. For accuracy comparison, the yellow line indicates the likelihood inferred from coalescent simulations.

Inline graphic — (A) Qualitative effects of modeled neutral genetic forces on , the density of alleles at relative frequencies and in populations 1 and 2. (B) For the spectra shown, an equilibrium population of effective size diverges into two populations generations ago. Populations 1 and 2 have effective sizes and , respectively. Migration is symmetric at per generation, and . (C) The AFS at . Each entry is colored by the logarithm of the number of sites in it, according to the scale shown. (D) The AFS at various times for various demographic parameters, on the same scale as (B). (E) Comparison between coalescent- and diffusion-based estimates of the likelihood of data generated under the model (A). Coalescent-based estimates of the likelihood, each of which took approximately 7.0 seconds, are represented in the histogram. The result from our diffusion approach, which took 2.0 seconds, is represented by the red line. For accuracy comparison, the yellow line indicates the likelihood inferred from coalescent simulations.

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