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authIdHal_s : pbastide

Phylogenetic comparative methods on phylogenetic networks with reticulations

Paul Bastide , Claudia Solís-Lemus , Ricardo Kriebel , K William Sparks , Cécile, Marie, Odile Ane et al.
Systematic Biology, 2018, 67 (5), pp.800-820
Journal articles hal-02625224v1

Inference of Adaptive Shifts for Multivariate Correlated Traits

Paul Bastide , Céline Ané , Stephane Robin , Mahendra Mariadassou
Systematic Biology, 2018, 67, ⟨10.1093/sysbio/syy005⟩
Journal articles hal-01608932v1

nosoi: A stochastic agent‐based transmission chain simulation framework in r

Sebastian Lequime , Paul Bastide , Simon Dellicour , Philippe Lemey , Guy Baele et al.
Methods in Ecology and Evolution, 2020, 11 (8), pp.1002-1007. ⟨10.1111/2041-210X.13422⟩
Journal articles hal-02988215v1

Multiple factors behind early diversification of skull morphology in the continental radiation of New World monkeys

Leandro Aristide , Paul Bastide , Sergio Furtado dos Reis , Thaís Pires dos Santos , Ricardo Lopes et al.
Evolution - International Journal of Organic Evolution, 2018, 72 (12), pp.2697-2711. ⟨10.1111/evo.13609⟩
Journal articles hal-02883478v1

Detection of orthologous genes with expression shifts linked to nickel hyperaccumulation across Eudicots

Mélina Gallopin , Christine Drevet , Vanesa de la Torre , Sarah Jelassi , Marie Michel et al.
2022
Preprints, Working Papers, ... hal-03835818v1

Large-scale inference of correlation among mixed-type biological traits with phylogenetic multivariate probit models

Zhenyu Zhang , Akihiko Nishimura , Paul Bastide , Xiang Ji , Rebecca Payne et al.
Annals of Applied Statistics, 2021, 15 (1), ⟨10.1214/20-AOAS1394⟩
Journal articles hal-03254483v1
Image document

Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework

Simon Dellicour , Sebastian Lequime , Bram Vrancken , Mandev S Gill , Paul Bastide et al.
Nature Communications, 2020, 11 (1), ⟨10.1038/s41467-020-19122-z⟩
Journal articles hal-03254476v1

Efficient Bayesian inference of general Gaussian models on large phylogenetic trees

Paul Bastide , Lam Si Tung Ho , Guy Baele , Philippe Lemey , Marc Suchard et al.
Annals of Applied Statistics, 2021, 15 (2), ⟨10.1214/20-AOAS1419⟩
Journal articles hal-03365716v1
Image document

Rivers and landscape ecology of a plant virus, Rice yellow mottle virus along the Niger Valley

Souley Issaka , Oumar Issiaka I. Traore , Régis Dimitri Skopé Longué , Agnès Pinel-Galzi , Mandev S. Gill et al.
Virus Evolution, 2021, 7 (2), pp.veab072. ⟨10.1093/ve/veab072⟩
Journal articles hal-03365735v1

Markov-Modulated Continuous-Time Markov Chains to Identify Site- and Branch-Specific Evolutionary Variation in BEAST

Guy Baele , Mandev Gill , Paul Bastide , Philippe Lemey , Marc Suchard et al.
Systematic Biology, 2020, ⟨10.1093/sysbio/syaa037⟩
Journal articles hal-02988204v1
Image document

Shifted stochastic processes evolving on trees : application to models of adaptive evolution on phylogenies.

Paul Bastide
Statistics [math.ST]. Université Paris Saclay (COmUE), 2017. English. ⟨NNT : 2017SACLS370⟩
Theses tel-01629648v1

Benchmark of Differential Gene Expression Analysis Methods for Inter-species RNA-Seq Data using a Phylogenetic Simulation Framework

Paul Bastide , Charlotte Soneson , Olivier Lespinet , Mélina Gallopin
2022
Preprints, Working Papers, ... hal-03837544v1

Detection of adaptive shifts on phylogenies by using shifted stochastic processes on a tree

Paul Bastide , Mahendra Mariadassou , Stephane Robin
Journal of the Royal Statistical Society: Series B, 2017, ⟨10.1111/rssb.12206⟩
Journal articles hal-01551071v1

PhyloNetworks: A package for phylogenetic networks

Claudia Solís-Lemus , Paul Bastide , Céline Ané
Molecular Biology and Evolution, 2017, 34 (12), pp.3292-3298. ⟨10.1093/molbev/msx235⟩
Journal articles hal-02624465v1