Download or read book Bayesian GLMs in R for Ecology written by Mark Warren and published by Independently Published. This book was released on 2021-10-16 with total page 232 pages. Available in PDF, EPUB and Kindle. Book excerpt: A practical handbook to introduce Bayesian general and generalised linear models (GLMs) to ecologists using R. The book is aimed at advanced undergraduate and post-graduate research students and provides access to R script and data for each analysis presented. The concepts behind Bayesian modelling are explained, along with comprehensive instructions of how to fit Bayesian models as well as highlighting the potential pitfalls to this approach.
Download or read book A Beginner s Guide to GLM and GLMM with R written by Alain F. Zuur and published by . This book was released on 2013 with total page 256 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents Generalized Linear Models (GLM) and Generalized Linear Mixed Models (GLMM) based on both frequency-based and Bayesian concepts.
Download or read book GLMs in R for Ecology written by Carl Smith and published by . This book was released on 2019 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Mixed Effects Models and Extensions in Ecology with R written by Alain Zuur and published by Springer Science & Business Media. This book was released on 2009-03-05 with total page 579 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book discusses advanced statistical methods that can be used to analyse ecological data. Most environmental collected data are measured repeatedly over time, or space and this requires the use of GLMM or GAMM methods. The book starts by revising regression, additive modelling, GAM and GLM, and then discusses dealing with spatial or temporal dependencies and nested data.
Download or read book Bayesian Data Analysis in Ecology Using Linear Models with R BUGS and Stan written by Franzi Korner-Nievergelt and published by Academic Press. This book was released on 2015-04-04 with total page 329 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bayesian Data Analysis in Ecology Using Linear Models with R, BUGS, and STAN examines the Bayesian and frequentist methods of conducting data analyses. The book provides the theoretical background in an easy-to-understand approach, encouraging readers to examine the processes that generated their data. Including discussions of model selection, model checking, and multi-model inference, the book also uses effect plots that allow a natural interpretation of data. Bayesian Data Analysis in Ecology Using Linear Models with R, BUGS, and STAN introduces Bayesian software, using R for the simple modes, and flexible Bayesian software (BUGS and Stan) for the more complicated ones. Guiding the ready from easy toward more complex (real) data analyses ina step-by-step manner, the book presents problems and solutions—including all R codes—that are most often applicable to other data and questions, making it an invaluable resource for analyzing a variety of data types. Introduces Bayesian data analysis, allowing users to obtain uncertainty measurements easily for any derived parameter of interest Written in a step-by-step approach that allows for eased understanding by non-statisticians Includes a companion website containing R-code to help users conduct Bayesian data analyses on their own data All example data as well as additional functions are provided in the R-package blmeco
Download or read book Ecological Models and Data in R written by Benjamin M. Bolker and published by Princeton University Press. This book was released on 2008-07-21 with total page 408 pages. Available in PDF, EPUB and Kindle. Book excerpt: Introduction and background; Exploratory data analysis and graphics; Deterministic functions for ecological modeling; Probability and stochastic distributions for ecological modeling; Stochatsic simulation and power analysis; Likelihood and all that; Optimization and all that; Likelihood examples; Standar statistics revisited; Modeling variance; Dynamic models.
Download or read book Introduction to WinBUGS for Ecologists written by Marc Kery and published by Academic Press. This book was released on 2010-07-19 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt: Introduction to WinBUGS for Ecologists introduces applied Bayesian modeling to ecologists using the highly acclaimed, free WinBUGS software. It offers an understanding of statistical models as abstract representations of the various processes that give rise to a data set. Such an understanding is basic to the development of inference models tailored to specific sampling and ecological scenarios. The book begins by presenting the advantages of a Bayesian approach to statistics and introducing the WinBUGS software. It reviews the four most common statistical distributions: the normal, the uniform, the binomial, and the Poisson. It describes the two different kinds of analysis of variance (ANOVA): one-way and two- or multiway. It looks at the general linear model, or ANCOVA, in R and WinBUGS. It introduces generalized linear model (GLM), i.e., the extension of the normal linear model to allow error distributions other than the normal. The GLM is then extended contain additional sources of random variation to become a generalized linear mixed model (GLMM) for a Poisson example and for a binomial example. The final two chapters showcase two fairly novel and nonstandard versions of a GLMM. The first is the site-occupancy model for species distributions; the second is the binomial (or N-) mixture model for estimation and modeling of abundance. Introduction to the essential theories of key models used by ecologists Complete juxtaposition of classical analyses in R and Bayesian analysis of the same models in WinBUGS Provides every detail of R and WinBUGS code required to conduct all analyses Companion Web Appendix that contains all code contained in the book and additional material (including more code and solutions to exercises)
Download or read book Spatial Data Analysis in Ecology and Agriculture Using R written by Richard E. Plant and published by CRC Press. This book was released on 2012-03-07 with total page 637 pages. Available in PDF, EPUB and Kindle. Book excerpt: Assuming no prior knowledge of R, Spatial Data Analysis in Ecology and Agriculture Using R provides practical instruction on the use of the R programming language to analyze spatial data arising from research in ecology and agriculture. Written in terms of four data sets easily accessible online, this book guides the reader through the analysis of each data set, including setting research objectives, designing the sampling plan, data quality control, exploratory and confirmatory data analysis, and drawing scientific conclusions. Based on the author’s spatial data analysis course at the University of California, Davis, the book is intended for classroom use or self-study by graduate students and researchers in ecology, geography, and agricultural science with an interest in the analysis of spatial data.
Download or read book Applied Hierarchical Modeling in Ecology Analysis of distribution abundance and species richness in R and BUGS written by Marc Kéry and published by Academic Press. This book was released on 2015-11-14 with total page 810 pages. Available in PDF, EPUB and Kindle. Book excerpt: Applied Hierarchical Modeling in Ecology: Distribution, Abundance, Species Richness offers a new synthesis of the state-of-the-art of hierarchical models for plant and animal distribution, abundance, and community characteristics such as species richness using data collected in metapopulation designs. These types of data are extremely widespread in ecology and its applications in such areas as biodiversity monitoring and fisheries and wildlife management. This first volume explains static models/procedures in the context of hierarchical models that collectively represent a unified approach to ecological research, taking the reader from design, through data collection, and into analyses using a very powerful class of models. Applied Hierarchical Modeling in Ecology, Volume 1 serves as an indispensable manual for practicing field biologists, and as a graduate-level text for students in ecology, conservation biology, fisheries/wildlife management, and related fields. Provides a synthesis of important classes of models about distribution, abundance, and species richness while accommodating imperfect detection Presents models and methods for identifying unmarked individuals and species Written in a step-by-step approach accessible to non-statisticians and provides fully worked examples that serve as a template for readers' analyses Includes companion website containing data sets, code, solutions to exercises, and further information
Download or read book Bringing Bayesian Models to Life written by Mevin B. Hooten and published by CRC Press. This book was released on 2019-05-15 with total page 591 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bringing Bayesian Models to Life empowers the reader to extend, enhance, and implement statistical models for ecological and environmental data analysis. We open the black box and show the reader how to connect modern statistical models to computer algorithms. These algorithms allow the user to fit models that answer their scientific questions without needing to rely on automated Bayesian software. We show how to handcraft statistical models that are useful in ecological and environmental science including: linear and generalized linear models, spatial and time series models, occupancy and capture-recapture models, animal movement models, spatio-temporal models, and integrated population-models. Features: R code implementing algorithms to fit Bayesian models using real and simulated data examples. A comprehensive review of statistical models commonly used in ecological and environmental science. Overview of Bayesian computational methods such as importance sampling, MCMC, and HMC. Derivations of the necessary components to construct statistical algorithms from scratch. Bringing Bayesian Models to Life contains a comprehensive treatment of models and associated algorithms for fitting the models to data. We provide detailed and annotated R code in each chapter and apply it to fit each model we present to either real or simulated data for instructional purposes. Our code shows how to create every result and figure in the book so that readers can use and modify it for their own analyses. We provide all code and data in an organized set of directories available at the authors' websites.
Download or read book Introduction to Hierarchical Bayesian Modeling for Ecological Data written by Eric Parent and published by CRC Press. This book was released on 2012-08-21 with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt: Making statistical modeling and inference more accessible to ecologists and related scientists, Introduction to Hierarchical Bayesian Modeling for Ecological Data gives readers a flexible and effective framework to learn about complex ecological processes from various sources of data. It also helps readers get started on building their own statisti
Download or read book Beginner s guide to spatial temporal and spatial temporal ecological data analysis with R INLA written by Alain F. Zuur and published by . This book was released on 2017 with total page 362 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Bayesian Analysis for Population Ecology written by Ruth King and published by CRC Press. This book was released on 2009-10-30 with total page 457 pages. Available in PDF, EPUB and Kindle. Book excerpt: Emphasizing model choice and model averaging, this book presents up-to-date Bayesian methods for analyzing complex ecological data. It provides a basic introduction to Bayesian methods that assumes no prior knowledge. The book includes detailed descriptions of methods that deal with covariate data and covers techniques at the forefront of research, such as model discrimination and model averaging. Leaders in the statistical ecology field, the authors apply the theory to a wide range of actual case studies and illustrate the methods using WinBUGS and R. The computer programs and full details of the data sets are available on the book's website.
Download or read book Generalized Additive Models written by Simon Wood and published by CRC Press. This book was released on 2006-02-27 with total page 412 pages. Available in PDF, EPUB and Kindle. Book excerpt: Now in widespread use, generalized additive models (GAMs) have evolved into a standard statistical methodology of considerable flexibility. While Hastie and Tibshirani's outstanding 1990 research monograph on GAMs is largely responsible for this, there has been a long-standing need for an accessible introductory treatment of the subject that also emphasizes recent penalized regression spline approaches to GAMs and the mixed model extensions of these models. Generalized Additive Models: An Introduction with R imparts a thorough understanding of the theory and practical applications of GAMs and related advanced models, enabling informed use of these very flexible tools. The author bases his approach on a framework of penalized regression splines, and builds a well-grounded foundation through motivating chapters on linear and generalized linear models. While firmly focused on the practical aspects of GAMs, discussions include fairly full explanations of the theory underlying the methods. Use of the freely available R software helps explain the theory and illustrates the practicalities of linear, generalized linear, and generalized additive models, as well as their mixed effect extensions. The treatment is rich with practical examples, and it includes an entire chapter on the analysis of real data sets using R and the author's add-on package mgcv. Each chapter includes exercises, for which complete solutions are provided in an appendix. Concise, comprehensive, and essentially self-contained, Generalized Additive Models: An Introduction with R prepares readers with the practical skills and the theoretical background needed to use and understand GAMs and to move on to other GAM-related methods and models, such as SS-ANOVA, P-splines, backfitting and Bayesian approaches to smoothing and additive modelling.
Download or read book Data Analysis Using Hierarchical Generalized Linear Models with R written by Youngjo Lee and published by CRC Press. This book was released on 2017-07-06 with total page 250 pages. Available in PDF, EPUB and Kindle. Book excerpt: Since their introduction, hierarchical generalized linear models (HGLMs) have proven useful in various fields by allowing random effects in regression models. Interest in the topic has grown, and various practical analytical tools have been developed. This book summarizes developments within the field and, using data examples, illustrates how to analyse various kinds of data using R. It provides a likelihood approach to advanced statistical modelling including generalized linear models with random effects, survival analysis and frailty models, multivariate HGLMs, factor and structural equation models, robust modelling of random effects, models including penalty and variable selection and hypothesis testing. This example-driven book is aimed primarily at researchers and graduate students, who wish to perform data modelling beyond the frequentist framework, and especially for those searching for a bridge between Bayesian and frequentist statistics.
Download or read book Introduction to Bayesian Methods in Ecology and Natural Resources written by Edwin J. Green and published by Springer Nature. This book was released on 2020-11-26 with total page 188 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents modern Bayesian analysis in a format that is accessible to researchers in the fields of ecology, wildlife biology, and natural resource management. Bayesian analysis has undergone a remarkable transformation since the early 1990s. Widespread adoption of Markov chain Monte Carlo techniques has made the Bayesian paradigm the viable alternative to classical statistical procedures for scientific inference. The Bayesian approach has a number of desirable qualities, three chief ones being: i) the mathematical procedure is always the same, allowing the analyst to concentrate on the scientific aspects of the problem; ii) historical information is readily used, when appropriate; and iii) hierarchical models are readily accommodated. This monograph contains numerous worked examples and the requisite computer programs. The latter are easily modified to meet new situations. A primer on probability distributions is also included because these form the basis of Bayesian inference. Researchers and graduate students in Ecology and Natural Resource Management will find this book a valuable reference.
Download or read book Bayesian Applications in Environmental and Ecological Studies with R and Stan written by Song S. Qian and published by CRC Press. This book was released on 2022-08-29 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: Modern ecological and environmental sciences are dominated by observational data. As a result, traditional statistical training often leaves scientists ill-prepared for the data analysis tasks they encounter in their work. Bayesian methods provide a more robust and flexible tool for data analysis, as they enable information from different sources to be brought into the modelling process. Bayesian Applications in Evnironmental and Ecological Studies with R and Stan provides a Bayesian framework for model formulation, parameter estimation, and model evaluation in the context of analyzing environmental and ecological data. Features: An accessible overview of Bayesian methods in environmental and ecological studies Emphasizes the hypothetical deductive process, particularly model formulation Necessary background material on Bayesian inference and Monte Carlo simulation Detailed case studies, covering water quality monitoring and assessment, ecosystem response to urbanization, fisheries ecology, and more Advanced chapter on Bayesian applications, including Bayesian networks and a change point model Complete code for all examples, along with the data used in the book, are available via GitHub The book is primarily aimed at graduate students and researchers in the environmental and ecological sciences, as well as environmental management professionals. This is a group of people representing diverse subject matter fields, who could benefit from the potential power and flexibility of Bayesian methods.
