About: Bayesian inference in phylogeny

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Bayesian inference of phylogeny combines the information in the prior and in the data likelihood to create the so-called posterior probability of trees, which is the probability that the tree is correct given the data, the prior and the likelihood model. Bayesian inference was introduced into molecular phylogenetics in the 1990s by three independent groups: Bruce Rannala and Ziheng Yang in Berkeley, Bob Mau in Madison, and Shuying Li in University of Iowa, the last two being PhD students at the time. The approach has become very popular since the release of the MrBayes software in 2001, and is now one of the most popular methods in molecular phylogenetics.

Attributes	Values
rdf:type	yago:WikicatApplicationsOfBayesianInference yago:Abstraction100002137 yago:Application106570110 yago:Code106355894 yago:CodingSystem106353757 yago:Communication100033020 yago:Program106568978 yago:Writing106359877 yago:WrittenCommunication106349220 yago:Software106566077
rdfs:label	Bayesian inference in phylogeny (en) Inferencia bayesiana en filogenia (es) Inferenza bayesiana in filogenesi (it) ベイズ法 (ja) Байесовский подход в филогенетике (ru) 贝叶斯法 (zh)
rdfs:comment	Bayesian inference of phylogeny combines the information in the prior and in the data likelihood to create the so-called posterior probability of trees, which is the probability that the tree is correct given the data, the prior and the likelihood model. Bayesian inference was introduced into molecular phylogenetics in the 1990s by three independent groups: Bruce Rannala and Ziheng Yang in Berkeley, Bob Mau in Madison, and Shuying Li in University of Iowa, the last two being PhD students at the time. The approach has become very popular since the release of the MrBayes software in 2001, and is now one of the most popular methods in molecular phylogenetics. (en) La inferencia bayesiana en filogenia genera la probabilidad posterior de un parámetro, un árbol filogenético y/o un modelo evolutivo, basada en la probabilidad anterior de ese parámetro y la función de verosimilitud de los datos. La aplicación del análisis bayesiano en la inferencia filogenética presenta varias ventajas en comparación con otros métodos de inferencia, como la fácil interpretación de los resultados, la posibilidad de usar información apriorística y algunas ventajas computacionales. Se calcula la probabilidad de que nuestro árbol sea correcto condicionada por los datos que tenemos: P (árbol\|datos). Lo contrario a otros métodos, que calculan la probabilidad de que nuestros datos se adapten al árbol: P (datos\|árbol). (es) ベイズ法（ベイズほう、英：Bayesian inference method）は、生物の系統進化を示す系統樹を推定する手法の一つ。ベイズの定理に基づいて尤度を通してデータを加味した事後確率分布を目的関数にとり、マルコフ連鎖モンテカルロ法を適用して事後確率分布を推定し、その期待値としての最良の樹形を選択する。ベイズ法を利用した系統推定ソフトウェアではMrBayesが代表的である。 (ja) 貝葉氏譜系分析（Bayesian inference of phylogeny）是根據已知的推導的似然函數，進而去預測最可能的系譜樹。隨著電腦計算速度的演進以及马尔科夫-蒙特卡洛法的演進，貝葉氏譜系分析越來越受重視和應用。贝叶斯推断時常應用於分子系統發生學以及系統分類學。 (zh) L'inferenza bayesiana in filogenesi è uno dei metodi più all'avanguardia usati per la costruzione di alberi filogenetici. Si basa sul teorema di Bayes e permette di condurre un'analisi a posteriori dei dati in possesso del ricercatore, e di risolvere alcuni problemi tipici della ricostruzione filogenetica. (it) Байесовский подход в филогенетике позволяет получить наиболее вероятное филогенетическое дерево при заданных исходных данных, последовательностях ДНК или белков рассматриваемых организмов и эволюционной модели замен. Для снижения вычислительной сложности алгоритма расчёт апостериорной вероятности реализуется различными алгоритмами, использующими метод Монте-Карло для марковских цепей. Главными преимуществами байесовского подхода по сравнению с методами максимального правдоподобия и максимальной экономии является вычислительная эффективность, способность работать со сложными моделями эволюции, а также то, что, в отличие от методов, указывающих на единственное наилучшее по заданному критерию дерево, он позволяет выбрать несколько вариантов филогенетического дерева с наибольшим значением апос (ru)
foaf:homepage	http://mrbayes.sourceforge.net/
name	Bayesian inference in phylogeny (en)
foaf:depiction
dcterms:subject	Applications of Bayesian inference Computational phylogenetics
Wikipage page ID	7022979 (xsd:integer)
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Link from a Wikipage to another Wikipage	Bayesian inference Applications of Bayesian inference Metropolis–Hastings algorithm Bayes' theorem Molecular phylogenetics Taxa Computational phylogenetics Cold chain BEAST 2 Bootstrapping Nexus file Markov chain Long branch attraction Markov chain Monte Carlo Evolutionary biology
Link from a Wikipage to an external page	http://beast.bio.ed.ac.uk/ http://compevol.github.io/CBAN http://www.atgc-montpellier.fr/phylobayes/ http://www.maths.abdn.ac.uk/%CB%9Cijw http://www.stat.wisc.edu/~ane/bucky/ https://nbisweden.github.io/MrBayes/ https://web.archive.org/web/20200219023353/http:/www.evolution.rdg.ac.uk/BayesPhy.html http://www.bali-phy.org http://www.beast2.org http://www.geneious.com http://www.topali.org https://beast.community https://github.com/armadilloUQAM/armadillo2/ http://www.evolution.rdg.ac.uk/BayesPhy.html http://mrbayes.sourceforge.net/
sameAs	Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny Bayesian inference in phylogeny
dbp:wikiPageUsesTemplate	dbt:Clear dbt:Dead_link dbt:Infobox dbt:Main dbt:Reflist dbt:Short_description dbt:Webarchive dbt:Phylogenetics
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data	Bayesian inference Molecular phylogenetics Evolutionary biology
date	2020-02-19 (xsd:date) June 2019 (en)
fix-attempted	yes (en)
label	Classification (en) Optimally search criteria (en) Subclassification (en)
title	Bayesian inference in phylogeny (en)
url	https://web.archive.org/web/20200219023353/http:/www.evolution.rdg.ac.uk/BayesPhy.html
labelstyle	33.0 (second)

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