Fast and accurate estimation of the population-scaled mutation rate, theta, from microsatellite genotype data.
We present a new approach for estimation of the population-scaled mutation rate, , from microsatellite genotype data, using the recently introduced "product of approximate conditionals" framework. Comparisons with other methods on simulated data demonstrate that this new approach is attractive in terms of both accuracy and speed of computation. Our simulation experiments also demonstrate that, despite the theoretical advantages of full-likelihood-based methods, methods based on certain summary statistics (specifically, the sample homozygosity) can perform very competitively in practice.
Roychoudhury
Arindam
A
Department of Statistics, University of Washington, Seattle, Washington 98195-4322, USA. aroy@fas.harvard.edu
Stephens
Matthew
M
D004171:Diploidy; D014644:Genetic Variation; D005828:Genetics, Population; D005838:Genotype; D006720:Homozygote; D007700:Kinetics; D018895:Microsatellite Repeats / Q000235:genetics*; D008957:Models, Genetic; D009154:Mutation