Lagged couplings diagnose Markov chain Monte Carlo phylogenetic inference
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Publication:6161882
DOI10.1214/22-AOAS1676arXiv2108.13328OpenAlexW3197256954MaRDI QIDQ6161882
Luke J. Kelly, Robin J. Ryder, Grégoire Clarté
Publication date: 5 June 2023
Published in: The Annals of Applied Statistics (Search for Journal in Brave)
Full work available at URL: https://arxiv.org/abs/2108.13328
Cites Work
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- Reversible jump Markov chain Monte Carlo computation and Bayesian model determination
- Bayesian analysis of continuous time Markov chains with application to phylogenetic modelling
- General state space Markov chains and MCMC algorithms
- Limitations of Markov chain Monte Carlo algorithms for Bayesian inference of phylogeny
- Geometry of the space of phylogenetic trees
- Inference from iterative simulation using multiple sequences
- A polynomial time algorithm for constructing the refined Buneman tree
- Revisiting the Gelman-Rubin diagnostic
- Couplings for Andersen dynamics
- Unbiased Markov chain Monte Carlo for intractable target distributions
- Large-scale inference of correlation among mixed-type biological traits with phylogenetic multivariate probit models
- Efficient Bayesian inference of general Gaussian models on large phylogenetic trees
- The shape of the one-dimensional phylogenetic likelihood function
- Lateral transfer in stochastic Dollo models
- Extremal distances for subtree transfer operations in binary trees
- A note on the relaxation time of two Markov chains on rooted phylogenetic tree spaces
- ggplot2
- Markov Chain Monte Carlo Convergence Diagnostics: A Comparative Review
- Uncertainty in Phylogenetic Tree Estimates
- Dated Ancestral Trees from Binary Trait Data and Their Application to the Diversification of Languages
- A Coupling-Regeneration Scheme for Diagnosing Convergence in Markov Chain Monte Carlo Algorithms
- Mixing Time for a Markov Chain on Cladograms
- Possible biases induced by mcmc convergence diagnostics
- Exact sampling with coupled Markov chains and applications to statistical mechanics
- Unbiased Hamiltonian Monte Carlo with couplings
- Multivariate output analysis for Markov chain Monte Carlo
- Double Happiness: Enhancing the Coupled Gains of L-lag Coupling via Control Variates
- Zig-Zag Sampling for Discrete Structures and Nonreversible Phylogenetic MCMC
- Distance metrics for ranked evolutionary trees
- Unbiased Markov Chain Monte Carlo Methods with Couplings
- Smoothing With Couplings of Conditional Particle Filters
- Equation of State Calculations by Fast Computing Machines
- Confidence Sets for Phylogenetic Trees
- Bayesian Phylogenetic Inference Using a Combinatorial Sequential Monte Carlo Method
- Monte Carlo sampling methods using Markov chains and their applications
- Getting It Right
- Non-Reversible Parallel Tempering: A Scalable Highly Parallel MCMC Scheme
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