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Paul Bastide
Researcher at University of Montpellier
Publications - 21
Citations - 572
Paul Bastide is an academic researcher from University of Montpellier. The author has contributed to research in topics: Model selection & Phylogenetic tree. The author has an hindex of 6, co-authored 21 publications receiving 320 citations. Previous affiliations of Paul Bastide include Institut national de la recherche agronomique & Katholieke Universiteit Leuven.
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PhyloNetworks: A Package for Phylogenetic Networks
TL;DR: PhyloNetworks is a Julia package for the inference, manipulation, visualization, and use of phylogenetic networks in an interactive environment and is the first software providing tools to summarize a set of networks with measures of tree edge support, hybrid edge Support, and hybrid node support.
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Inference of Adaptive Shifts for Multivariate Correlated Traits.
TL;DR: An Expectation‐Maximization (EM) algorithm is described that allows for a maximum likelihood estimation of the shift positions, associated with a new model selection criterion, accounting for the identifiability issues for the shift localization on the tree.
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Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations
TL;DR: An efficient recursive algorithm is developed to compute the phylogenetic variance matrix of a trait on a network, in only one preorder traversal of the network, using phylogenetic regression with covariates, ancestral trait reconstruction, and Pagel's λ test of phylogenetic signal.
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Detection of adaptive shifts on phylogenies by using shifted stochastic processes on a tree
Paul Bastide,Paul Bastide,Paul Bastide,Mahendra Mariadassou,Mahendra Mariadassou,Stéphane Robin,Stéphane Robin,Stéphane Robin +7 more
TL;DR: In this paper, the authors consider shifts in the process parameters, which reveal fast adaptation to changes of ecological niches, and propose a model selection procedure based on the cardinal of effective scenarios to estimate the number of shifts and for which they prove an oracle inequality.
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Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework.
Simon Dellicour,Simon Dellicour,Sebastian Lequime,Bram Vrancken,Mandev S. Gill,Paul Bastide,Karthik Gangavarapu,Nathaniel L. Matteson,Yi Tan,Yi Tan,Louis du Plessis,Alexander A. Fisher,Martha I. Nelson,Marius Gilbert,Marc A. Suchard,Kristian G. Andersen,Kristian G. Andersen,Nathan D. Grubaugh,Oliver G. Pybus,Philippe Lemey +19 more
TL;DR: This work applies an analytical workflow to a comprehensive WNV genome collection and finds that WNV lineages tend to disperse faster in areas with higher temperatures and identifies temporal variation in temperature as a main predictor of viral genetic diversity through time.