Estimating the scaled mutation rate and mutation bias with site frequency data

DOI10.1016/j.tpb.2014.10.002zbMath1304.92100OpenAlexW2001196930WikidataQ30873218 ScholiaQ30873218MaRDI QIDQ2514393

Claus Vogl

Publication date: 3 February 2015

Published in: Theoretical Population Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1016/j.tpb.2014.10.002

zbMATH Keywords

posteriorEM-algorithmMarkov chain Monte Carlo algorithmbeta-binomialmutation-drift equilibriumStirling distribution

Mathematics Subject Classification ID

Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.) (60J20) Genetics and epigenetics (92D10)

Related Items

Inference of directional selection and mutation parameters assuming equilibrium, Maximum likelihood estimators for scaled mutation rates in an equilibrium mutation-drift model, The stationary distribution of a sample from the Wright-Fisher diffusion model with general small mutation rates, Inference in population genetics using forward and backward, discrete and continuous time processes, An approximate stationary solution for multi-allele neutral diffusion with low mutation rates, Rate matrix estimation from site frequency data, A nearly-neutral biallelic Moran model with biased mutation and linear and quadratic selection, The stationary and quasi-stationary properties of neutral multi-type branching process diffusions

Uses Software

• BayesDA

Cites Work

• Unnamed Item
• Unnamed Item
• A coalescent dual process in a Moran model with genic selection
• Maximum likelihood and Bayesian methods for estimating the distribution of selective effects among classes of mutations using DNA polymorphism data
• A note on the sampling theory for infinite alleles and infinite sites models
• On the number of segregating sites in genetical models without recombination
• The allele-frequency spectrum in a decoupled Moran model with mutation, drift, and directional selection, assuming small mutation rates
• The sampling theory of selectively neutral alleles
• Sufficiency of the number of segregating sites in the limit under finite-sites mutation