40 citations · 70 across the 24 of their papers we have counts for
6 papers · 1 filter
Large-scale inference of correlation among mixed-type biological traits with phylogenetic multivariate probit models
Zhenyu Zhang, Akihiko Nishimura, Paul Bastide +5
Inferring concerted changes among biological traits along an evolutionary history remains an important yet challenging problem. Besides adjusting for spurious correlation induced f…
Markov-modulated continuous-time Markov chains to identify site- and branch-specific evolutionary variation
Guy Baele, Mandev S. Gill, Philippe Lemey +1
Markov models of character substitution on phylogenies form the foundation of phylogenetic inference frameworks. Early models made the simplifying assumption that the substitution…
Inferring phenotypic trait evolution on large trees with many incomplete measurements
Gabriel Hassler, Max R. Tolkoff, William L. Allen +3
Comparative biologists are often interested in inferring covariation between multiple biological traits sampled across numerous related taxa. To properly study these relationships,…
Relaxed random walks at scale
Alexander A. Fisher, Xiang Ji, Philippe Lemey +1
Relaxed random walk (RRW) models of trait evolution introduce branch-specific rate multipliers to modulate the variance of a standard Brownian diffusion process along a phylogeny a…
Gradients do grow on trees: a linear-time -dimensional gradient for statistical phylogenetics
Xiang Ji, Zhenyu Zhang, Andrew Holbrook +5
Calculation of the log-likelihood stands as the computational bottleneck for many statistical phylogenetic algorithms. Even worse is its gradient evaluation, often used to target r…
Massive parallelization boosts big Bayesian multidimensional scaling
Andrew Holbrook, Philippe Lemey, Guy Baele +4
Big Bayes is the computationally intensive co-application of big data and large, expressive Bayesian models for the analysis of complex phenomena in scientific inference and statis…