335 citations · 535 across the 9 of their papers we have counts for
4 papers · 1 filter
Finding high posterior density phylogenies by systematically extending a directed acyclic graph
Chris Jennings-Shaffer, David H Rich, Matthew Macaulay +7
Bayesian phylogenetics typically estimates a posterior distribution, or aspects thereof, using Markov chain Monte Carlo methods. These methods integrate over tree space by applying…
Variational Bayesian Supertrees
Michael Karcher, Cheng Zhang, Frederick A Matsen
Given overlapping subsets of a set of taxa (e.g. species), and posterior distributions on phylogenetic tree topologies for each of these taxon sets, how can we infer a posterior di…
Estimating effective population size changes from preferentially sampled genetic sequences
Michael D. Karcher, Marc A. Suchard, Gytis Dudas +1
Coalescent theory combined with statistical modeling allows us to estimate effective population size fluctuations from molecular sequences of individuals sampled from a population…
phylodyn: an R package for phylodynamic simulation and inference
Michael D. Karcher, Julia A. Palacios, Shiwei Lan +1
We introduce phylodyn, an R package for phylodynamic analysis based on gene genealogies. The package main functionality is Bayesian nonparametric estimation of effective population…