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stat.CO2025
Improved Bounds for Context-Dependent Evolutionary Models Using Sequential Monte Carlo
Joseph Mathews, Scott C. Schmidler
Statistical inference in evolutionary models with site-dependence is a long-standing challenge in phylogenetics and computational biology. We consider the problem of approximating…
stat.CO2025
Importance Sampling Approximation of Sequence Evolution Models with Site-Dependence
Joseph Mathews, Scott C. Schmidler
We consider models for molecular sequence evolution in which the transition rates at each site depend on the local sequence context, giving rise to a time-inhomogeneous Markov proc…
q-bio.PE2025
Posterior bounds on divergence time of two sequences under dependent-site evolutionary models
Joseph Mathews, Scott C. Schmidler
Let $\x$ and $\y$ be two length DNA sequences, and suppose we would like to estimate the divergence time . Under suitable conditions, a well-known simple but crude estimate…