Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics.

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BEAST 2: A Software Platform for Bayesian Evolutionary Analysis (2014, methodology): “In particular it implements relaxed clocks [3], non-parametric coalescent analysis [4,5], multispecies coalescent inference [6], phylogeography [7,8] and others.”
A framework for incorporating evolutionary genomics into biodiversity conservation and management (2015, background): “glacial cycles) can also be identified using high numbers of neutral loci, which can accurately reconstruct temporal changes in effective population size skyline plots [139].”
Phylogeography of the chestnut‐tailed antbird (Myrmeciza hemimelaena) clarifies the role of rivers in Amazonian biogeography (2012, methodology): “We reconstructed historical population size dynamics using the Gaussian Markov random field (GMRF) skyride plot (Minin et al., 2008), implemented in beast 1.6.1.”
Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7 (2018, background): “2005; Heled and Drummond 2008), skyride (Minin et al. 2008), and skygrid (Gill et al.”
Bayesian Phylogenetics with BEAUti and the BEAST 1.7 (2012, methodology): “These include the extended Bayesian skyline model (Heled and Drummond 2008) for multilocus data, the flexible Gaussian Markov random field skyride model (Minin et al. 2008), and birth–death models of speciation (Stadler 2010).”