[PDF] Bayesian Evolutionary Analysis With Beast eBook

Author : Alexei J. Drummond
Publisher : Cambridge University Press
Page : 263 pages
File Size : 32,99 MB
Release : 2015-08-06
Category : Science
ISBN : 1316298345

GET BOOK

What are the models used in phylogenetic analysis and what exactly is involved in Bayesian evolutionary analysis using Markov chain Monte Carlo (MCMC) methods? How can you choose and apply these models, which parameterisations and priors make sense, and how can you diagnose Bayesian MCMC when things go wrong? These are just a few of the questions answered in this comprehensive overview of Bayesian approaches to phylogenetics. This practical guide: • Addresses the theoretical aspects of the field • Advises on how to prepare and perform phylogenetic analysis • Helps with interpreting analyses and visualisation of phylogenies • Describes the software architecture • Helps developing BEAST 2.2 extensions to allow these models to be extended further. With an accompanying website providing example files and tutorials (http://beast2.org/), this one-stop reference to applying the latest phylogenetic models in BEAST 2 will provide essential guidance for all users – from those using phylogenetic tools, to computational biologists and Bayesian statisticians.

Author : Alexei J. Drummond
Publisher : Cambridge University Press
Page : 263 pages
File Size : 12,26 MB
Release : 2015-08-06
Category : Computers
ISBN : 1107019656

GET BOOK

Covers theory, practice and programming in Bayesian phylogenetics with BEAST. The why, how and what of BEAST 2.

Author : Ming-Hui Chen
Publisher : CRC Press
Page : 398 pages
File Size : 18,50 MB
Release : 2014-05-27
Category : Mathematics
ISBN : 1466500794

GET BOOK

Offering a rich diversity of models, Bayesian phylogenetics allows evolutionary biologists, systematists, ecologists, and epidemiologists to obtain answers to very detailed phylogenetic questions. Suitable for graduate-level researchers in statistics and biology, Bayesian Phylogenetics: Methods, Algorithms, and Applications presents a snapshot of current trends in Bayesian phylogenetic research. Encouraging interdisciplinary research, this book introduces state-of-the-art phylogenetics to the Bayesian statistical community and, likewise, presents state-of-the-art Bayesian statistics to the phylogenetics community. The book emphasizes model selection, reflecting recent interest in accurately estimating marginal likelihoods. It also discusses new approaches to improve mixing in Bayesian phylogenetic analyses in which the tree topology varies. In addition, the book covers divergence time estimation, biologically realistic models, and the burgeoning interface between phylogenetics and population genetics.

Author : Marco Salemi
Publisher : Cambridge University Press
Page : 750 pages
File Size : 28,87 MB
Release : 2009-03-26
Category : Science
ISBN : 0521877105

GET BOOK

A broad, hands on guide with detailed explanations of current methodology, relevant exercises and popular software tools.

Author : Ziheng Yang
Publisher : Oxford University Press, USA
Page : 374 pages
File Size : 42,6 MB
Release : 2006-10-05
Category : Medical
ISBN : 0198566999

GET BOOK

This book describes the models, methods and algorithms that are most useful for analysing the ever-increasing supply of molecular sequence data, with a view to furthering our understanding of the evolution of genes and genomes.

Author : Emmanuel Paradis
Publisher : Springer Science & Business Media
Page : 221 pages
File Size : 36,64 MB
Release : 2006-11-25
Category : Science
ISBN : 0387351000

GET BOOK

This book integrates a wide variety of data analysis methods into a single and flexible interface: the R language. The book starts with a presentation of different R packages and gives a short introduction to R for phylogeneticists unfamiliar with this language. The basic phylogenetic topics are covered. The chapter on tree drawing uses R's powerful graphical environment. A section deals with the analysis of diversification with phylogenies, one of the author's favorite research topics. The last chapter is devoted to the development of phylogenetic methods with R and interfaces with other languages (C and C++). Some exercises conclude these chapters.

Author : Marco Salemi
Publisher : Cambridge University Press
Page : 456 pages
File Size : 25,41 MB
Release : 2003-08-27
Category : Computers
ISBN : 9780521803908

GET BOOK

Sample Text

Author : Andreas Dress
Publisher : Cambridge University Press
Page : 277 pages
File Size : 25,55 MB
Release : 2012
Category : Mathematics
ISBN : 0521768322

GET BOOK

The first book to systematically introduce the emerging area of phylogenetic combinatorics.

Author : Guangchuang Yu
Publisher :
Page : 0 pages
File Size : 40,27 MB
Release : 2022
Category : Business & Economics
ISBN : 9781032245546

GET BOOK

Data Integration, Manipulation and Visualization of Phylogenetic Trees introduces and demonstrates data integration, manipulation and visualization of phylogenetic trees using a suite of R packages, tidytree, treeio, ggtree and ggtreeExtra. Using the most comprehensive packages for phylogenetic data integration and visualization, contains numerous examples that can be used for teaching and learning. Ideal for undergraduate readers and researchers with a working knowledge of R and ggplot2. Key Features: Manipulating phylogenetic tree with associated data using tidy verbs Integrating phylogenetic data from diverse sources Visualizing phylogenetic data using grammar of graphics