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Works (11)

Random-Effects Substitution Models for Phylogenetics via Scalable Gradient Approximations

Systematic Biology
2024-09-05 | Journal article
DOI: 10.1093/sysbio/syae019
Contributors: Andrew F Magee; Andrew J Holbrook; Jonathan E Pekar; Itzue W Caviedes-Solis; Fredrick A Matsen IV; Guy Baele; Joel O Wertheim; Xiang Ji; Philippe Lemey; Marc A Suchard et al.
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On the surprising effectiveness of a simple matrix exponential derivative approximation, with application to global SARS-CoV-2

Proceedings of the National Academy of Sciences
2024-01-16 | Journal article
DOI: 10.1073/pnas.2318989121
Contributors: Gustavo Didier; Nathan E. Glatt-Holtz; Andrew J. Holbrook; Andrew F. Magee; Marc A. Suchard
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Rapidly changing speciation and extinction rates can be inferred in spite of nonidentifiability

Proceedings of the National Academy of Sciences
2023-02-14 | Journal article
DOI: 10.1073/pnas.2208851120
Contributors: Bjørn T. Kopperud; Andrew F. Magee; Sebastian Höhna
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CRABS: Congruent rate analyses in birth–death scenarios

Methods in Ecology and Evolution
2022-12 | Journal article
DOI: 10.1111/2041-210X.13997
Contributors: Sebastian Höhna; Bjørn T. Kopperud; Andrew F. Magee
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The molecular epidemiology of multiple zoonotic origins of SARS-CoV-2

Science
2022-08-26 | Journal article
DOI: 10.1126/science.abp8337
Contributors: Jonathan E. Pekar; Andrew Magee; Edyth Parker; Niema Moshiri; Katherine Izhikevich; Jennifer L. Havens; Karthik Gangavarapu; Lorena Mariana Malpica Serrano; Alexander Crits-Christoph; Nathaniel L. Matteson et al.
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ACDC: Analysis of Congruent Diversification Classes

2022-01-14 | Preprint
DOI: 10.1101/2022.01.12.476142
Contributors: Sebastian Höhna; Bjørn T. Kopperud; Andrew F. Magee
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Robustness of Phylogenetic Inference to Model Misspecification Caused by Pairwise Epistasis

Molecular Biology and Evolution
2021-09-27 | Journal article
DOI: 10.1093/molbev/msab163
Contributors: Andrew F Magee; Sarah K Hilton; William S DeWitt; Tal Pupko
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Impact of K-Pg Mass Extinction Event on Crocodylomorpha Inferred from Phylogeny of Extinct and Extant Taxa

2021-01-16 | Preprint
DOI: 10.1101/2021.01.14.426715
Contributors: Andrew F. Magee; Sebastian Höhna
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Robustness of phylogenetic inference to model misspecification caused by pairwise epistasis

2020-11-17 | Preprint
DOI: 10.1101/2020.11.17.387365
Contributors: Andrew F. Magee; Sarah K. Hilton; William S. DeWitt
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Horseshoe‐based Bayesian nonparametric estimation of effective population size trajectories

Biometrics
2020-09 | Journal article
DOI: 10.1111/biom.13276
Contributors: James R. Faulkner; Andrew F. Magee; Beth Shapiro; Vladimir N. Minin
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Rejoinder for discussion on “Horseshoe‐based Bayesian nonparametric estimation of effective population size trajectories”

Biometrics
2020-09 | Journal article
DOI: 10.1111/biom.13273
Contributors: James R. Faulkner; Andrew F. Magee; Beth Shapiro; Vladimir N. Minin
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Peer review (1 review for 1 publication/grant)

Review activity for PLoS computational biology. (1)
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