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Author: Nathan G. Swenson
Publisher: Springer Science & Business Media
ISBN: 1461495423
Category : Computers
Languages : en
Pages : 217
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Book Description
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.
Author: Nathan G. Swenson
Publisher: Springer Science & Business Media
ISBN: 1461495423
Category : Computers
Languages : en
Pages : 217
Get Book Here
Book Description
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.
Author: Francesco de Bello
Publisher: Cambridge University Press
ISBN: 1108472915
Category : Nature
Languages : en
Pages : 311
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Book Description
Trait-based ecology is rapidly expanding. This comprehensive and accessible guide covers the main concepts and tools in functional ecology.
Author: Nathan G. Swenson
Publisher: University of Chicago Press
ISBN: 022667150X
Category : Science
Languages : en
Pages : 229
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Book Description
Over the past decade, ecologists have increasingly embraced phylogenetics, the study of evolutionary relationships among species. As a result, they have come to discover the field’s power to illuminate present ecological patterns and processes. Ecologists are now investigating whether phylogenetic diversity is a better measure of ecosystem health than more traditional metrics like species diversity, whether it can predict the future structure and function of communities and ecosystems, and whether conservationists might prioritize it when formulating conservation plans. In Phylogenetic Ecology, Nathan G. Swenson synthesizes this nascent field’s major conceptual, methodological, and empirical developments to provide students and practicing ecologists with a foundational overview. Along the way, he highlights those realms of phylogenetic ecology that will likely increase in relevance—such as the burgeoning subfield of phylogenomics—and shows how ecologists might lean on these new perspectives to inform their research programs.
Author: Marc W. Cadotte
Publisher: Princeton University Press
ISBN: 0691157685
Category : Science
Languages : en
Pages : 264
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Book Description
Phylogenies in Ecology is the first book to critically review the application of phylogenetic methods in ecology, and it serves as a primer to working ecologists and students of ecology wishing to understand these methods. This book demonstrates how phylogenetic information is transforming ecology by offering fresh ways to estimate the similarities and differences among species, and by providing deeper, evolutionary-based insights on species distributions, coexistence, and niche partitioning. Marc Cadotte and Jonathan Davies examine this emerging area's explosive growth, allowing for this new body of hypotheses testing. Cadotte and Davies systematically look at all the main areas of current ecophylogenetic methodology, testing, and inference. Each chapter of their book covers a unique topic, emphasizes key assumptions, and introduces the appropriate statistical methods and null models required for testing phylogenetically informed hypotheses. The applications presented throughout are supported and connected by examples relying on real-world data that have been analyzed using the open-source programming language, R. Showing how phylogenetic methods are shedding light on fundamental ecological questions related to species coexistence, conservation, and global change, Phylogenies in Ecology will interest anyone who thinks that evolution might be important in their data.
Author: Serge Morand
Publisher: Cambridge University Press
ISBN: 1107037654
Category : Medical
Languages : en
Pages : 503
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Book Description
By joining phylogenetics and evolutionary ecology, this book explores the patterns of parasite diversity while revealing diversification processes.
Author: Rosa A. Scherson
Publisher: Springer
ISBN: 3319931458
Category : Science
Languages : en
Pages : 223
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Book Description
“Biodiversity” refers to the variety of life. It is now agreed that there is a “biodiversity crisis”, corresponding to extinction rates of species that may be 1000 times what is thought to be “normal”. Biodiversity science has a higher profile than ever, with the new Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services involving more than 120 countries and 1000s of scientists. At the same time, the discipline is re-evaluating its foundations – including its philosophy and even core definitions. The value of biodiversity is being debated. In this context, the tree of life (“phylogeny”) is emerging as an important way to look at biodiversity, with relevance cutting across current areas of concern – from the question of resilience within ecosystems, to conservation priorities for globally threatened species – while capturing the values of biodiversity that have been hard to quantify, including resilience and maintaining options for future generations. This increased appreciation of the importance of conserving “phylogenetic diversity”, from microbial communities in the human gut to global threatened species, has inevitably resulted in an explosion of new indices, methods, and case studies. This book recognizes and responds to the timely opportunity for synthesis and sharing experiences in practical applications. The book recognizes that the challenge of finding a synthesis, and building shared concepts and a shared toolbox, requires both an appreciation of the past and a look into the future. Thus, the book is organized as a flow from history, concepts and philosophy, through to methods and tools, and followed by selected case studies. A positive vision and plan of action emerges from these chapters, that includes coping with inevitable uncertainties, effectively communicating the importance of this “evolutionary heritage” to the public and to policy-makers, and ultimately contributing to biodiversity conservation policy from local to global scales.
Author: Roseli Pellens
Publisher: Springer
ISBN: 3319224611
Category : Science
Languages : en
Pages : 396
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Book Description
This book is about phylogenetic diversity as an approach to reduce biodiversity losses in this period of mass extinction. Chapters in the first section deal with questions such as the way we value phylogenetic diversity among other criteria for biodiversity conservation; the choice of measures; the loss of phylogenetic diversity with extinction; the importance of organisms that are deeply branched in the tree of life, and the role of relict species. The second section is composed by contributions exploring methodological aspects, such as how to deal with abundance, sampling effort, or conflicting trees in analysis of phylogenetic diversity. The last section is devoted to applications, showing how phylogenetic diversity can be integrated in systematic conservation planning, in EDGE and HEDGE evaluations. This wide coverage makes the book a reference for academics, policy makers and stakeholders dealing with biodiversity conservation.
Author: Walter Carson
Publisher: John Wiley & Sons
ISBN: 1444356267
Category : Science
Languages : en
Pages : 686
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Book Description
Historically, tropical ecology has been a science often content with descriptive and demographic approaches, which is understandable given the difficulty of studying these ecosystems and the need for basic demographic information. Nonetheless, over the last several years, tropical ecologists have begun to test more sophisticated ecological theory and are now beginning to address a broad array of questions that are of particular importance to tropical systems, and ecology in general. Why are there are so many species in tropical forests and what mechanisms are responsible for the maintenance of that vast species diversity? What factors control species coexistence? Are there common patterns of species abundance and distribution across broad geographic scales? What is the role of trophic interactions in these complex ecosystems? How can these fragile ecosystems be conserved? Containing contributions from some of the world’s leading tropical ecologists, Tropical Forest Community Ecology provides a summary of the key issues in the discipline of tropical ecology: Includes contributions from some of the world’s leading tropical ecologists Covers patterns of species distribution, the maintenance of species diversity, the community ecology of tropical animals, forest regeneration and conservation of tropical ecosystems
Author: Nathan G. Swenson
Publisher: University of Chicago Press
ISBN: 022667164X
Category : Science
Languages : en
Pages : 229
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Book Description
Over the past decade, ecologists have increasingly embraced phylogenetics, the study of evolutionary relationships among species. As a result, they have come to discover the field’s power to illuminate present ecological patterns and processes. Ecologists are now investigating whether phylogenetic diversity is a better measure of ecosystem health than more traditional metrics like species diversity, whether it can predict the future structure and function of communities and ecosystems, and whether conservationists might prioritize it when formulating conservation plans. In Phylogenetic Ecology, Nathan G. Swenson synthesizes this nascent field’s major conceptual, methodological, and empirical developments to provide students and practicing ecologists with a foundational overview. Along the way, he highlights those realms of phylogenetic ecology that will likely increase in relevance—such as the burgeoning subfield of phylogenomics—and shows how ecologists might lean on these new perspectives to inform their research programs.
Author: Keon-Woong Moon
Publisher: Springer
ISBN: 3319530194
Category : Computers
Languages : en
Pages : 356
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Book Description
This book and app is for practitioners, professionals, researchers, and students who want to learn how to make a plot within the R environment using ggplot2, step-by-step without coding. In widespread use in the statistical communities, R is a free software language and environment for statistical programming and graphics. Many users find R to have a steep learning curve but to be extremely useful once overcome. ggplot2 is an extremely popular package tailored for producing graphics within R but which requires coding and has a steep learning curve itself, and Shiny is an open source R package that provides a web framework for building web applications using R without requiring HTML, CSS, or JavaScript. This manual—"integrating" R, ggplot2, and Shiny—introduces a new Shiny app, Learn ggplot2, that allows users to make plots easily without coding. With the Learn ggplot2 Shiny app, users can make plots using ggplot2 without having to code each step, reducing typos and error messages and allowing users to become familiar with ggplot2 code. The app makes it easy to apply themes, make multiplots (combining several plots into one plot), and download plots as PNG, PDF, or PowerPoint files with editable vector graphics. Users can also make plots on any computer or smart phone. Learn ggplot2 Using Shiny App allows users to Make publication-ready plots in minutes without coding Download plots with desired width, height, and resolution Plot and download plots in png, pdf, and PowerPoint formats, with or without R code and with editable vector graphics
