Phylogenetic Comparative Methods In R
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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
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.
Analysis Of Phylogenetics And Evolution With R
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Author : Emmanuel Paradis
language : en
Publisher: Springer
Release Date : 2008-11-01
Analysis Of Phylogenetics And Evolution With R written by Emmanuel Paradis and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-11-01 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.
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.
Functional And Phylogenetic Ecology In R
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Author : Nathan G. Swenson
language : en
Publisher: Springer Science & Business Media
Release Date : 2014-03-26
Functional And Phylogenetic Ecology In R written by Nathan G. Swenson 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 2014-03-26 with Computers categories.
Functional and Phylogenetic Ecology in R is designed to teach readers to use R for phylogenetic and functional trait analyses. Over the past decade, a dizzying array of tools and methods were generated to incorporate phylogenetic and functional information into traditional ecological analyses. Increasingly these tools are implemented in R, thus greatly expanding their impact. Researchers getting started in R can use this volume as a step-by-step entryway into phylogenetic and functional analyses for ecology in R. More advanced users will be able to use this volume as a quick reference to understand particular analyses. The volume begins with an introduction to the R environment and handling relevant data in R. Chapters then cover phylogenetic and functional metrics of biodiversity; null modeling and randomizations for phylogenetic and functional trait analyses; integrating phylogenetic and functional trait information; and interfacing the R environment with a popular C-based program. This book presents a unique approach through its focus on ecological analyses and not macroevolutionary analyses. The author provides his own code, so that the reader is guided through the computational steps to calculate the desired metrics. This guided approach simplifies the work of determining which package to use for any given analysis. Example datasets are shared to help readers practice, and readers can then quickly turn to their own datasets.
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.
Handbook Of Trait Based Ecology
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Author : Francesco de Bello
language : en
Publisher: Cambridge University Press
Release Date : 2021-03-11
Handbook Of Trait Based Ecology written by Francesco de Bello 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 2021-03-11 with Nature categories.
Trait-based ecology is rapidly expanding. This comprehensive and accessible guide covers the main concepts and tools in functional ecology.
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 Phylogenetic Handbook
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Author : Marco Salemi
language : en
Publisher: Cambridge University Press
Release Date : 2009-03-26
The Phylogenetic Handbook written by Marco Salemi 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 2009-03-26 with Science categories.
A broad, hands on guide with detailed explanations of current methodology, relevant exercises and popular software tools.