Bayesian Evolutionary Analysis with BEAST

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Publisher : Cambridge University Press
ISBN 13 : 1316298345
Total Pages : 263 pages
Book Rating : 4.3/5 (162 download)

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Book Synopsis Bayesian Evolutionary Analysis with BEAST by : Alexei J. Drummond

Download or read book Bayesian Evolutionary Analysis with BEAST written by Alexei J. Drummond and published by Cambridge University Press. This book was released on 2015-08-06 with total page 263 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Bayesian Evolutionary Analysis with BEAST

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Author :
Publisher : Cambridge University Press
ISBN 13 : 1107019656
Total Pages : 263 pages
Book Rating : 4.1/5 (7 download)

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Book Synopsis Bayesian Evolutionary Analysis with BEAST by : Alexei J. Drummond

Download or read book Bayesian Evolutionary Analysis with BEAST written by Alexei J. Drummond and published by Cambridge University Press. This book was released on 2015-08-06 with total page 263 pages. Available in PDF, EPUB and Kindle. Book excerpt: Covers theory, practice and programming in Bayesian phylogenetics with BEAST. The why, how and what of BEAST 2.

Bayesian Phylogenetics

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Publisher : CRC Press
ISBN 13 : 1466500794
Total Pages : 398 pages
Book Rating : 4.4/5 (665 download)

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Book Synopsis Bayesian Phylogenetics by : Ming-Hui Chen

Download or read book Bayesian Phylogenetics written by Ming-Hui Chen and published by CRC Press. This book was released on 2014-05-27 with total page 398 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

The Phylogenetic Handbook

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Publisher : Cambridge University Press
ISBN 13 : 0521877105
Total Pages : 750 pages
Book Rating : 4.5/5 (218 download)

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Book Synopsis The Phylogenetic Handbook by : Marco Salemi

Download or read book The Phylogenetic Handbook written by Marco Salemi and published by Cambridge University Press. This book was released on 2009-03-26 with total page 750 pages. Available in PDF, EPUB and Kindle. Book excerpt: A broad, hands on guide with detailed explanations of current methodology, relevant exercises and popular software tools.

Evolutionary Genomics

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Publisher :
ISBN 13 : 9781617795824
Total Pages : pages
Book Rating : 4.7/5 (958 download)

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Book Synopsis Evolutionary Genomics by : Maria Anisimova

Download or read book Evolutionary Genomics written by Maria Anisimova and published by . This book was released on 2012 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:

Computational Molecular Evolution

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Publisher : Oxford University Press
ISBN 13 : 0198566999
Total Pages : 374 pages
Book Rating : 4.1/5 (985 download)

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Book Synopsis Computational Molecular Evolution by : Ziheng Yang

Download or read book Computational Molecular Evolution written by Ziheng Yang and published by Oxford University Press. This book was released on 2006-10-05 with total page 374 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Evolutionary Pathways in Nature

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Publisher : Cambridge University Press
ISBN 13 : 1139455036
Total Pages : 17 pages
Book Rating : 4.1/5 (394 download)

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Book Synopsis Evolutionary Pathways in Nature by : John C. Avise

Download or read book Evolutionary Pathways in Nature written by John C. Avise and published by Cambridge University Press. This book was released on 2006-05-04 with total page 17 pages. Available in PDF, EPUB and Kindle. Book excerpt: Reconstructing phylogenetic trees from DNA sequences has become a popular exercise in many branches of biology, and here the well-known geneticist John Avise explains why. Molecular phylogenies provide a genealogical backdrop for interpreting the evolutionary histories of many other types of biological traits (anatomical, behavioral, ecological, physiological, biochemical and even geographical). Guiding readers on a natural history tour along dozens of evolutionary pathways, the author describes how creatures ranging from microbes to elephants came to possess their current phenotypes. Essential reading for college students, professional biologists and anyone interested in natural history and biodiversity, this book is packed with fascinating examples of evolutionary puzzles from across the animal kingdom; how the toucan got its enormous bill, how reptiles grow back lost limbs and why Arctic fish don't freeze.

Molecular Evolution

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Publisher : Oxford University Press
ISBN 13 : 0199602603
Total Pages : 509 pages
Book Rating : 4.1/5 (996 download)

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Book Synopsis Molecular Evolution by : Ziheng Yang

Download or read book Molecular Evolution written by Ziheng Yang and published by Oxford University Press. This book was released on 2014 with total page 509 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents and explains modern statistical methods and computational algorithms for the comparative analysis of genetic sequence data in the fields of molecular evolution, molecular phylogenetics, statistical phylogeography, and comparative genomics. The book offers numerous examples of real data analysis and numerical calculations to illustrate the theory, in addition to the working problems at the end of each chapter. The coverage of maximum likelihood and Bayesian methods are in particular up-to-date, comprehensive, and authoritative.

The Phylogenetic Handbook

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Publisher : Cambridge University Press
ISBN 13 : 9780521803908
Total Pages : 456 pages
Book Rating : 4.8/5 (39 download)

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Book Synopsis The Phylogenetic Handbook by : Marco Salemi

Download or read book The Phylogenetic Handbook written by Marco Salemi and published by Cambridge University Press. This book was released on 2003-08-27 with total page 456 pages. Available in PDF, EPUB and Kindle. Book excerpt: Sample Text

Basic Phylogenetic Combinatorics

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Publisher : Cambridge University Press
ISBN 13 : 0521768322
Total Pages : 277 pages
Book Rating : 4.5/5 (217 download)

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Book Synopsis Basic Phylogenetic Combinatorics by : Andreas Dress

Download or read book Basic Phylogenetic Combinatorics written by Andreas Dress and published by Cambridge University Press. This book was released on 2012 with total page 277 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first book to systematically introduce the emerging area of phylogenetic combinatorics.

Handbook of Evolutionary Research in Archaeology

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Publisher : Springer
ISBN 13 : 3030111172
Total Pages : 443 pages
Book Rating : 4.0/5 (31 download)

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Book Synopsis Handbook of Evolutionary Research in Archaeology by : Anna Marie Prentiss

Download or read book Handbook of Evolutionary Research in Archaeology written by Anna Marie Prentiss and published by Springer. This book was released on 2019-06-03 with total page 443 pages. Available in PDF, EPUB and Kindle. Book excerpt: Evolutionary Research in Archaeology seeks to provide a comprehensive overview of contemporary evolutionary research in archaeology. The book will provide a single source for introduction and overview of basic and advanced evolutionary concepts and research programs in archaeology. Content will be organized around four areas of critical research including microevolutionary and macroevolutionary process, human ecology studies (evolutionary ecology, demography, and niche construction), and evolutionary cognitive archaeology. Authors of individual chapters will address theoretical foundations, history of research, contemporary contributions and debates, and implications for the future for their respective topics. As appropriate, authors present or discuss short empirical case studies to illustrate key arguments. ​

Mathematics of Evolution and Phylogeny

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Publisher : OUP Oxford
ISBN 13 : 9780191513732
Total Pages : 444 pages
Book Rating : 4.5/5 (137 download)

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Book Synopsis Mathematics of Evolution and Phylogeny by : Olivier Gascuel

Download or read book Mathematics of Evolution and Phylogeny written by Olivier Gascuel and published by OUP Oxford. This book was released on 2005-02-24 with total page 444 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book considers evolution at different scales: sequences, genes, gene families, organelles, genomes and species. The focus is on the mathematical and computational tools and concepts, which form an essential basis of evolutionary studies, indicate their limitations, and give them orientation. Recent years have witnessed rapid progress in the mathematics of evolution and phylogeny, with models and methods becoming more realistic, powerful, and complex. Aimed at graduates and researchers in phylogenetics, mathematicians, computer scientists and biologists, and including chapters by leading scientists: A. Bergeron, D. Bertrand, D. Bryant, R. Desper, O. Elemento, N. El-Mabrouk, N. Galtier, O. Gascuel, M. Hendy, S. Holmes, K. Huber, A. Meade, J. Mixtacki, B. Moret, E. Mossel, V. Moulton, M. Pagel, M.-A. Poursat, D. Sankoff, M. Steel, J. Stoye, J. Tang, L.-S. Wang, T. Warnow, Z. Yang, this book of contributed chapters explains the basis and covers the recent results in this highly topical area.

Analysis of Phylogenetics and Evolution with R

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Publisher : Springer Science & Business Media
ISBN 13 : 0387351000
Total Pages : 221 pages
Book Rating : 4.3/5 (873 download)

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Book Synopsis Analysis of Phylogenetics and Evolution with R by : Emmanuel Paradis

Download or read book Analysis of Phylogenetics and Evolution with R written by Emmanuel Paradis and published by Springer Science & Business Media. This book was released on 2006-11-25 with total page 221 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

The Timetree of Life

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Publisher : OUP Oxford
ISBN 13 : 019160898X
Total Pages : 1237 pages
Book Rating : 4.1/5 (916 download)

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Book Synopsis The Timetree of Life by : S. Blair Hedges

Download or read book The Timetree of Life written by S. Blair Hedges and published by OUP Oxford. This book was released on 2009-04-23 with total page 1237 pages. Available in PDF, EPUB and Kindle. Book excerpt: The evolutionary history of life includes two primary components: phylogeny and timescale. Phylogeny refers to the branching order (relationships) of species or other taxa within a group and is crucial for understanding the inheritance of traits and for erecting classifications. However, a timescale is equally important because it provides a way to compare phylogeny directly with the evolution of other organisms and with planetary history such as geology, climate, extraterrestrialimpacts, and other features.The Timetree of Life is the first reference book to synthesize the wealth of information relating to the temporal component of phylogenetic trees. In the past, biologists have relied exclusively upon the fossil record to infer an evolutionary timescale. However, recent revolutionary advances in molecular biology have made it possible to not only estimate the relationships of many groups of organisms, but also to estimate their times of divergence with molecular clocks. The routineestimation and utilization of these so-called 'time-trees' could add exciting new dimensions to biology including enhanced opportunities to integrate large molecular data sets with fossil and biogeographic evidence (and thereby foster greater communication between molecular and traditional systematists). Theycould help estimate not only ancestral character states but also evolutionary rates in numerous categories of organismal phenotype; establish more reliable associations between causal historical processes and biological outcomes; develop a universally standardized scheme for biological classifications; and generally promote novel avenues of thought in many arenas of comparative evolutionary biology.This authoritative reference work brings together, for the first time, experts on all major groups of organisms to assemble a timetree of life. The result is a comprehensive resource on evolutionary history which will be an indispensable reference for scientists, educators, and students in the life sciences, earth sciences, and molecular biology. For each major group of organism, a representative is illustrated and a timetree of families and higher taxonomic groups is shown. Basic aspects ofthe evolutionary history of the group, the fossil record, and competing hypotheses of relationships are discussed. Details of the divergence times are presented for each node in the timetree, and primary literature references are included. The book is complemented by an online database(www.timetree.net) which allows researchers to both deposit and retrieve data.

Data Integration, Manipulation and Visualization of Phylogenetic Trees

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Publisher :
ISBN 13 : 9781032245546
Total Pages : pages
Book Rating : 4.2/5 (455 download)

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Book Synopsis Data Integration, Manipulation and Visualization of Phylogenetic Trees by : Guangchuang Yu

Download or read book Data Integration, Manipulation and Visualization of Phylogenetic Trees written by Guangchuang Yu and published by . This book was released on 2022 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: "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"--

Phylogenetic Trees Made Easy

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Publisher :
ISBN 13 : 9780878933129
Total Pages : 221 pages
Book Rating : 4.9/5 (331 download)

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Book Synopsis Phylogenetic Trees Made Easy by : Barry G. Hall

Download or read book Phylogenetic Trees Made Easy written by Barry G. Hall and published by . This book was released on 2004 with total page 221 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Genetic and Evolutionary Computation for Image Processing and Analysis

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Publisher : Hindawi Publishing Corporation
ISBN 13 : 9774540018
Total Pages : 473 pages
Book Rating : 4.7/5 (745 download)

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Book Synopsis Genetic and Evolutionary Computation for Image Processing and Analysis by : Stefano Cagnoni

Download or read book Genetic and Evolutionary Computation for Image Processing and Analysis written by Stefano Cagnoni and published by Hindawi Publishing Corporation. This book was released on 2008 with total page 473 pages. Available in PDF, EPUB and Kindle. Book excerpt: