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For: Lartillot N. A phylogenetic Kalman filter for ancestral trait reconstruction using molecular data. ACTA ACUST UNITED AC 2013;30:488-96. [PMID: 24318999 DOI: 10.1093/bioinformatics/btt707] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Number Cited by Other Article(s)
1
Teo B, Bastide P, Ané C. Leveraging graphical model techniques to study evolution on phylogenetic networks. Philos Trans R Soc Lond B Biol Sci 2025;380:20230310. [PMID: 39976402 PMCID: PMC11867149 DOI: 10.1098/rstb.2023.0310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Revised: 08/27/2024] [Accepted: 09/16/2024] [Indexed: 02/21/2025]  Open
2
Mohammadi F, Visagan S, Gross SM, Karginov L, Lagarde JC, Heiser LM, Meyer AS. A lineage tree-based hidden Markov model quantifies cellular heterogeneity and plasticity. Commun Biol 2022;5:1258. [PMID: 36396800 PMCID: PMC9671968 DOI: 10.1038/s42003-022-04208-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2021] [Accepted: 11/01/2022] [Indexed: 11/18/2022]  Open
3
Lecocq M, Groussin M, Gouy M, Brochier-Armanet C. The Molecular Determinants of Thermoadaptation: Methanococcales as a Case Study. Mol Biol Evol 2021;38:1761-1776. [PMID: 33450027 PMCID: PMC8097290 DOI: 10.1093/molbev/msaa312] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]  Open
4
Bastide P, Ho LST, Baele G, Lemey P, Suchard MA. Efficient Bayesian inference of general Gaussian models on large phylogenetic trees. Ann Appl Stat 2021. [DOI: 10.1214/20-aoas1419] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
5
Mitov V, Bartoszek K, Asimomitis G, Stadler T. Fast likelihood calculation for multivariate Gaussian phylogenetic models with shifts. Theor Popul Biol 2019;131:66-78. [PMID: 31805292 DOI: 10.1016/j.tpb.2019.11.005] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Revised: 11/19/2019] [Accepted: 11/20/2019] [Indexed: 11/27/2022]
6
Bastide P, Mariadassou M, Robin S. Detection of adaptive shifts on phylogenies by using shifted stochastic processes on a tree. J R Stat Soc Series B Stat Methodol 2016. [DOI: 10.1111/rssb.12206] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
7
Clavel J, Escarguel G, Merceron G. mv morph : an r package for fitting multivariate evolutionary models to morphometric data. Methods Ecol Evol 2015. [DOI: 10.1111/2041-210x.12420] [Citation(s) in RCA: 251] [Impact Index Per Article: 25.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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