On estimating the effective sample size of phylogenetic trees in an autocorrelated chain
The paper addresses estimating effective sample size (ESS) for phylogenetic trees within autocorrelated MCMC chains, a key challenge due to tree space's discrete nature. Researchers introduce new methods using Conditional Clade Distributions (CCDs) and a probabilistic estimator. Evaluations show these new CCD-based estimators are comparable to existing ones in accuracy, stability, and robustness, while other proposed methods have high computational costs for long chains.