Phylogenetic Comparative Methods
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Phylogenetic Comparative Methods In R
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Author : Liam J. Revell
language : en
Publisher: Princeton University Press
Release Date : 2022-07-12
Phylogenetic Comparative Methods In R written by Liam J. Revell and has been published by Princeton University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-07-12 with Science categories.
An authoritative introduction to the latest comparative methods in evolutionary biology Phylogenetic comparative methods are a suite of statistical approaches that enable biologists to analyze and better understand the evolutionary tree of life, and shed vital new light on patterns of divergence and common ancestry among all species on Earth. This textbook shows how to carry out phylogenetic comparative analyses in the R statistical computing environment. Liam Revell and Luke Harmon provide an incisive conceptual overview of each method along with worked examples using real data and challenge problems that encourage students to learn by doing. By working through this book, students will gain a solid foundation in these methods and develop the skills they need to interpret patterns in the tree of life. Covers every major method of modern phylogenetic comparative analysis in R Explains the basics of R and discusses topics such as trait evolution, diversification, trait-dependent diversification, biogeography, and visualization Features a wealth of exercises and challenge problems Serves as an invaluable resource for students and researchers, with applications in ecology, evolution, anthropology, disease transmission, conservation biology, and a host of other areas Written by two of today’s leading developers of phylogenetic comparative methods
Modern Phylogenetic Comparative Methods And Their Application In Evolutionary Biology
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Author : László Zsolt Garamszegi
language : en
Publisher: Springer
Release Date : 2014-07-29
Modern Phylogenetic Comparative Methods And Their Application In Evolutionary Biology written by László Zsolt Garamszegi and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-07-29 with Science categories.
Phylogenetic comparative approaches are powerful analytical tools for making evolutionary inferences from interspecific data and phylogenies. The phylogenetic toolkit available to evolutionary biologists is currently growing at an incredible speed, but most methodological papers are published in the specialized statistical literature and many are incomprehensible for the user community. This textbook provides an overview of several newly developed phylogenetic comparative methods that allow to investigate a broad array of questions on how phenotypic characters evolve along the branches of phylogeny and how such mechanisms shape complex animal communities and interspecific interactions. The individual chapters were written by the leading experts in the field and using a language that is accessible for practicing evolutionary biologists. The authors carefully explain the philosophy behind different methodologies and provide pointers – mostly using a dynamically developing online interface – on how these methods can be implemented in practice. These “conceptual” and “practical” materials are essential for expanding the qualification of both students and scientists, but also offer a valuable resource for educators. Another value of the book are the accompanying online resources (available at: http://www.mpcm-evolution.com), where the authors post and permanently update practical materials to help embed methods into practice.
Phylogenetic Comparative Methods
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Author : Luke J. Harmon
language : en
Publisher:
Release Date : 2018-05-23
Phylogenetic Comparative Methods written by Luke J. Harmon and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-05-23 with categories.
An introduction to statistical analyses of phylogenetic trees using comparative methods.
Phylogenies And The Comparative Method In Animal Behavior
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Author : Emília P. Martins
language : en
Publisher: Oxford University Press, USA
Release Date : 1996
Phylogenies And The Comparative Method In Animal Behavior written by Emília P. Martins and has been published by Oxford University Press, USA this book supported file pdf, txt, epub, kindle and other format this book has been release on 1996 with Animal behavior categories.
In the last ten years, the "comparative method" has been revolutionized by modern statistical ways of incorporating phylogenies into the design and analysis of comparative studies. The results of this revolution are particularly important in the study of animal behavior, which has relied on interspecific comparisons to infer universal trends and evolutionary patterns. The chapters of this edited volume consider the impact of modern phylogenetic comparative methods on the study of animal behavior and discuss the main issues that need to be considered in design and analysis of a comparative study, considers possible differences between the evolution of behavior and the evolution of morphology, and reviews how phylogenetic comparative studies have been used in certain areas of behavioral research.
Analysis Of Phylogenetics And Evolution With R
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Author : Emmanuel Paradis
language : en
Publisher: Springer Science & Business Media
Release Date : 2006-11-25
Analysis Of Phylogenetics And Evolution With R written by Emmanuel Paradis and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-11-25 with Science categories.
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.
Phylogenetic Comparative Methods A User S Guide For Paleontologists
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Author : Laura C. Soul
language : en
Publisher: Cambridge University Press
Release Date : 2021-05-27
Phylogenetic Comparative Methods A User S Guide For Paleontologists written by Laura C. Soul and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-05-27 with Science categories.
Recent advances in statistical approaches called phylogenetic comparative methods (PCMs) have provided paleontologists with a powerful set of analytical tools for investigating evolutionary tempo and mode in fossil lineages. However, attempts to integrate PCMs with fossil data often present workers with practical challenges or unfamiliar literature. This Element presents guides to the theory behind and the application of PCMs with fossil taxa. Based on an empirical dataset of Paleozoic crinoids, example analyses are presented to illustrate common applications of PCMs to fossil data, including investigating patterns of correlated trait evolution and macroevolutionary models of morphological change. The authors emphasize the importance of accounting for sources of uncertainty and discuss how to evaluate model fit and adequacy. Finally, the authors discuss several promising methods for modeling heterogeneous evolutionary dynamics with fossil phylogenies. Integrating phylogeny-based approaches with the fossil record provides a rigorous, quantitative perspective on understanding key patterns in the history of life.
The Comparative Approach In Evolutionary Anthropology And Biology
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Author : Charles L. Nunn
language : en
Publisher: University of Chicago Press
Release Date : 2011-11-30
The Comparative Approach In Evolutionary Anthropology And Biology written by Charles L. Nunn and has been published by University of Chicago Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-11-30 with Science categories.
And when new fossils are found, such as those of the tiny humans of Flores, scientists compare these remains to other fossils and contemporary humans.
Biological Evolution And Statistical Physics
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Author : M. Lässig
language : en
Publisher: Springer
Release Date : 2008-01-11
Biological Evolution And Statistical Physics written by M. Lässig and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-01-11 with Science categories.
This set of lecture notes gives a first coherent account of a novel aspect of the living world that can be called biological information. The book presents both a pedagogical and state-of-the art roadmap of this rapidly evolving area and covers the whole field, from information which is encoded in the molecular genetic code to the description of large-scale evolution of complex species networks. The book will prove useful for all those who work at the interface of biology, physics and information science.
The Comparative Method In Evolutionary Biology
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Author : Paul H. Harvey
language : en
Publisher:
Release Date : 1998
The Comparative Method In Evolutionary Biology written by Paul H. Harvey and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 1998 with Science categories.
From Darwin onward, it has been second nature for evolutionary biologists to think comparatively, because comparisons establish the generality of evolutionary phenomena. Do large genomes slow down development? What lifestyles select for large brains? Are extinction rates related to body size? These are all questions for the comparative method, and this book is about how such questions can be answered. It examines how the comparative method complements other approaches, identifies the biological causes of similarity among species, and discusses methods for reconstructing phylogenetic trees, along with many other topics. The book will interest all students, professionals, and researchers in evolutionary biology, ecology, genetics and related fields.
Analysis Of Phylogenetics And Evolution With R
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Author : Emmanuel Paradis
language : en
Publisher: Springer Science & Business Media
Release Date : 2011-11-06
Analysis Of Phylogenetics And Evolution With R written by Emmanuel Paradis and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-11-06 with Science categories.
The increasing availability of molecular and genetic databases coupled with the growing power of computers gives biologists opportunities to address new issues, such as the patterns of molecular evolution, and re-assess old ones, such as the role of adaptation in species diversification. In the second edition, the book continues to integrate a wide variety of data analysis methods into a single and flexible interface: the R language. This open source language is available for a wide range of computer systems and has been adopted as a computational environment by many authors of statistical software. Adopting R as a main tool for phylogenetic analyses will ease the workflow in biologists' data analyses, ensure greater scientific repeatability, and enhance the exchange of ideas and methodological developments. The second edition is completed updated, covering the full gamut of R packages for this area that have been introduced to the market since its previous publication five years ago. There is also a new chapter on the simulation of evolutionary data. Graduate students and researchers in evolutionary biology can use this book as a reference for data analyses, whereas researchers in bioinformatics interested in evolutionary analyses will learn how to implement these methods in R. 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: manipulation of phylogenetic data, phylogeny estimation, tree drawing, phylogenetic comparative methods, and estimation of ancestral characters. 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.