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Efficient ancestry and mutation simulation with msprime 1.0
Stochastic simulation is a key tool in population genetics, since the models involved are
often analytically intractable and simulation is usually the only way of obtaining ground-truth …
often analytically intractable and simulation is usually the only way of obtaining ground-truth …
[PDF][PDF] How can we resolve Lewontin's paradox?
B Charlesworth, JD Jensen - Genome biology and evolution, 2022 - academic.oup.com
We discuss the genetic, demographic, and selective forces that are likely to be at play in
restricting observed levels of DNA sequence variation in natural populations to a much …
restricting observed levels of DNA sequence variation in natural populations to a much …
On the importance of skewed offspring distributions and background selection in virus population genetics
Many features of virus populations make them excellent candidates for population genetic
study, including a very high rate of mutation, high levels of nucleotide diversity, exceptionally …
study, including a very high rate of mutation, high levels of nucleotide diversity, exceptionally …
Sweepstakes reproductive success via pervasive and recurrent selective sweeps
Highly fecund natural populations characterized by high early mortality abound, yet our
knowledge about their recruitment dynamics is somewhat rudimentary. This knowledge gap …
knowledge about their recruitment dynamics is somewhat rudimentary. This knowledge gap …
Sweepstake reproductive success and collective dispersal produce chaotic genetic patchiness in a broadcast spawner
A long-standing paradox of marine populations is chaotic genetic patchiness (CGP),
temporally unstable patterns of genetic differentiation that occur below the geographic scale …
temporally unstable patterns of genetic differentiation that occur below the geographic scale …
Interpreting the pervasive observation of U-shaped Site Frequency Spectra
The standard neutral model of molecular evolution has traditionally been used as the null
model for population genomics. We gathered a collection of 45 genome-wide site frequency …
model for population genomics. We gathered a collection of 45 genome-wide site frequency …
Inferring demography and selection in organisms characterized by skewed offspring distributions
The recent increase in time-series population genomic data from experimental, natural, and
ancient populations has been accompanied by a promising growth in methodologies for …
ancient populations has been accompanied by a promising growth in methodologies for …
Bursts of coalescence within population pedigrees whenever big families occur
D Diamantidis, WT Fan, M Birkner, J Wakeley - Genetics, 2024 - academic.oup.com
We consider a simple diploid population-genetic model with potentially high variability of
offspring numbers among individuals. Specifically, against a backdrop of Wright–Fisher …
offspring numbers among individuals. Specifically, against a backdrop of Wright–Fisher …
The site frequency spectrum for general coalescents
General genealogical processes such as Λ-and Ξ-coalescents, which respectively model
multiple and simultaneous mergers, have important applications in studying marine species …
multiple and simultaneous mergers, have important applications in studying marine species …
Sweepstakes reproduction facilitates rapid adaptation in highly fecund populations
B Eldon, W Stephan - Molecular Ecology, 2024 - Wiley Online Library
Adaptation enables natural populations to survive in a changing environment.
Understanding the mechanics of adaptation is therefore crucial for learning about the …
Understanding the mechanics of adaptation is therefore crucial for learning about the …