occupancy estimation and modeling

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Occupancy Estimation and Modeling
Author : Darryl I. MacKenzie
Publisher : Academic Press
Release Date : 2006
ISBN 10 : 0120887665
Pages : 324 pages
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Occupancy in ecological investigations; Fundamental principles of statistical inference; Single-species, single-season occupancy models; Single-species, single-season models with heterogeneous detection probabilities; Design of single-season occupancy studies; Single-species, multiple-season occupancy models; Occupancy data for multiple species: species interactions; Occupancy in community-level studies; Future directions.

Occupancy Estimation and Modeling
Author : Darryl I. MacKenzie,James D. Nichols,J. Andrew Royle,Kenneth H. Pollock,Larissa Bailey,James E. Hines
Publisher : Elsevier
Release Date : 2017-11-17
ISBN 10 : 0124072453
Pages : 648 pages
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Occupancy Estimation and Modeling: Inferring Patterns and Dynamics of Species Occurrence, Second Edition, provides a synthesis of model-based approaches for analyzing presence-absence data, allowing for imperfect detection. Beginning from the relatively simple case of estimating the proportion of area or sampling units occupied at the time of surveying, the authors describe a wide variety of extensions that have been developed since the early 2000s. This provides an improved insight about species and community ecology, including, detection heterogeneity; correlated detections; spatial autocorrelation; multiple states or classes of occupancy; changes in occupancy over time; species co-occurrence; community-level modeling, and more. Occupancy Estimation and Modeling: Inferring Patterns and Dynamics of Species Occurrence, Second Edition has been greatly expanded and detail is provided regarding the estimation methods and examples of their application are given. Important study design recommendations are also covered to give a well rounded view of modeling. Provides authoritative insights into the latest in occupancy modeling Examines the latest methods in analyzing detection/no detection data surveys Addresses critical issues of imperfect detectability and its effects on species occurrence estimation Discusses important study design considerations such as defining sample units, sample size determination and optimal effort allocation

Bayesian Population Analysis Using WinBUGS
Author : Marc Kéry,Michael Schaub
Publisher : Academic Press
Release Date : 2012
ISBN 10 : 0123870208
Pages : 535 pages
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Bayesian statistics has exploded into biology and its sub-disciplines, such as ecology, over the past decade. The free software program WinBUGS, and its open-source sister OpenBugs, is currently the only flexible and general-purpose program available with which the average ecologist can conduct standard and non-standard Bayesian statistics. Comprehensive and richly commented examples illustrate a wide range of models that are most relevant to the research of a modern population ecologist All WinBUGS/OpenBUGS analyses are completely integrated in software R Includes complete documentation of all R and WinBUGS code required to conduct analyses and shows all the necessary steps from having the data in a text file out of Excel to interpreting and processing the output from WinBUGS in R

Hierarchical Modeling and Inference in Ecology
Author : J. Andrew Royle,Robert M. Dorazio
Publisher : Elsevier
Release Date : 2008-10-15
ISBN 10 : 0080559255
Pages : 464 pages
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A guide to data collection, modeling and inference strategies for biological survey data using Bayesian and classical statistical methods. This book describes a general and flexible framework for modeling and inference in ecological systems based on hierarchical models, with a strict focus on the use of probability models and parametric inference. Hierarchical models represent a paradigm shift in the application of statistics to ecological inference problems because they combine explicit models of ecological system structure or dynamics with models of how ecological systems are observed. The principles of hierarchical modeling are developed and applied to problems in population, metapopulation, community, and metacommunity systems. The book provides the first synthetic treatment of many recent methodological advances in ecological modeling and unifies disparate methods and procedures. The authors apply principles of hierarchical modeling to ecological problems, including * occurrence or occupancy models for estimating species distribution * abundance models based on many sampling protocols, including distance sampling * capture-recapture models with individual effects * spatial capture-recapture models based on camera trapping and related methods * population and metapopulation dynamic models * models of biodiversity, community structure and dynamics * Wide variety of examples involving many taxa (birds, amphibians, mammals, insects, plants) * Development of classical, likelihood-based procedures for inference, as well as Bayesian methods of analysis * Detailed explanations describing the implementation of hierarchical models using freely available software such as R and WinBUGS * Computing support in technical appendices in an online companion web site

Spatial Capture-Recapture
Author : J. Andrew Royle,Richard B. Chandler,Rahel Sollmann,Beth Gardner
Publisher : Academic Press
Release Date : 2013-08-27
ISBN 10 : 012407152X
Pages : 612 pages
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Spatial Capture-Recapture provides a comprehensive how-to manual with detailed examples of spatial capture-recapture models based on current technology and knowledge. Spatial Capture-Recapture provides you with an extensive step-by-step analysis of many data sets using different software implementations. The authors' approach is practical – it embraces Bayesian and classical inference strategies to give the reader different options to get the job done. In addition, Spatial Capture-Recapture provides data sets, sample code and computing scripts in an R package. Comprehensive reference on revolutionary new methods in ecology makes this the first and only book on the topic Every methodological element has a detailed worked example with a code template, allowing you to learn by example Includes an R package that contains all computer code and data sets on companion website

Applied Hierarchical Modeling in Ecology: Analysis of Distribution, Abundance and Species Richness in R and BUGS
Author : Marc Kery,J. Andrew Royle
Publisher : Academic Press
Release Date : 2020-10-10
ISBN 10 : 0128097272
Pages : 820 pages
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Applied Hierarchical Modeling in Ecology: Analysis of Distribution, Abundance and Species Richness in R and BUGS, Volume Two: Dynamic and Advanced Models provides a synthesis of the state-of-the-art in hierarchical models for plant and animal distribution, also focusing on the complex and more advanced models currently available. The book explains all procedures in the context of hierarchical models that represent a unified approach to ecological research, thus taking the reader from design, through data collection, and into analyses using a very powerful way of synthesizing data. Makes ecological modeling accessible for people who are struggling to use complex or advanced modeling programs Synthesizes current ecological models and explains how they are inter-connected Contains examples throughout the book, walking the reading through scenarios with both real and simulated data Presents an ideal resource for ecologists working in R, an open source version of S known for its exceptional ecology analyses, and in BUGS for more flexible Bayesian analyses

Introduction to WinBUGS for Ecologists
Author : Marc Kery
Publisher : Academic Press
Release Date : 2010-07-19
ISBN 10 : 9780123786067
Pages : 320 pages
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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)

Analysis and Management of Animal Populations
Author : Byron K. Williams,James D. Nichols,Michael J. Conroy
Publisher : Academic Press
Release Date : 2002-05
ISBN 10 : 0127544062
Pages : 817 pages
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Analysis and Management of Animal Populations deals with the processes involved in making informed decisions about the management of animal populations. It covers the modeling of population responses to management actions, the estimation of quantities needed in the modeling effort, and the application of these estimates and models to the development of sound management decisions. The book synthesizes and integrates in a single volume the methods associated with these themes, as they apply to ecological assessment and conservation of animal populations. Integrates population modeling, parameter estimation and decision-theoretic approaches to management in a single, cohesive framework Provides authoritative, state-of-the-art descriptions of quantitative approaches to modeling, estimation and decision-making Emphasizes the role of mathematical modeling in the conduct of science and management Utilizes a unifying biological context, consistent mathematical notation, and numerous biological examples

Bayesian Data Analysis in Ecology Using Linear Models with R, BUGS, and Stan
Author : Franzi Korner-Nievergelt,Tobias Roth,Stefanie von Felten,Jérôme Guélat,Bettina Almasi,Pius Korner-Nievergelt
Publisher : Academic Press
Release Date : 2015-04-04
ISBN 10 : 0128016787
Pages : 328 pages
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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

Models for Planning Wildlife Conservation in Large Landscapes
Author : Joshua Millspaugh,Frank R. Thompson
Publisher : Academic Press
Release Date : 2011-04-28
ISBN 10 : 9780080920160
Pages : 720 pages
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A single-resource volume of information on the most current and effective techniques of wildlife modeling, Models for Planning Wildlife Conservation in Large Landscapes is appropriate for students and researchers alike. The unique blend of conceptual, methodological, and application chapters discusses research, applications and concepts of modeling and presents new ideas and strategies for wildlife habitat models used in conservation planning. The book makes important contributions to wildlife conservation of animals in several ways: (1) it highlights historical and contemporary advancements in the development of wildlife habitat models and their implementation in conservation planning; (2) it provides practical advice for the ecologist conducting such studies; and (3) it supplies directions for future research including new strategies for successful studies. Intended to provide a recipe for successful development of wildlife habitat models and their implementation in conservation planning, the book could be used in studying wildlife habitat models, conservation planning, and management techniques. Additionally it may be a supplemental text in courses dealing with quantitative assessment of wildlife populations. Additionally, the length of the book would be ideal for graduate student seminar course. Using wildlife habitat models in conservation planning is of considerable interest to wildlife biologists. With ever tightening budgets for wildlife research and planning activities, there is a growing need to use computer methods. Use of simulation models represents the single best alternative. However, it is imperative that these techniques be described in a single source. Moreover, biologists should be made aware of alternative modeling techniques. It is also important that practical guidance be provided to biologists along with a demonstration of utility of these procedures. Currently there is little guidance in the wildlife or natural resource planning literature on how best to incorporate wildlife planning activities, particularly community-based approaches. Now is the perfect time for a synthestic publication that clearly outlines the concepts and available methods, and illustrates them. Only single resource book of information not only on various wildlife modeling techniques, but also with practical guidance on the demonstrated utility of each based on real-world conditions. Provides concepts, methods and applications for wildlife ecologists and others within a GIS context. Written by a team of subject-area experts

Monitoring Vertebrate Populations
Author : William L. Thompson,Gary C. White,Charles Gowan
Publisher : Elsevier
Release Date : 1998-08-17
ISBN 10 : 0080536948
Pages : 365 pages
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This book is written to serve as a general reference for biologists and resource managers with relatively little statistical training. It focuses on both basic concepts and practical applications to provide professionals with the tools needed to assess monitoring methods that can detect trends in populations. It combines classical finite population sampling designs with population enumeration procedures in a unified approach for obtaining abundance estimates for species of interest. The statistical information is presented in practical, easy-to-understand terminology. Presented in practical, easy-to-understand terminology Serves as a general reference for biologists and resource managers Provides the tools needed to detect trends in populations Introduces a unified approach for obtaining abundance estimates

Population Ecology in Practice
Author : Brett K. Sandercock
Publisher : John Wiley & Sons
Release Date : 2020-02-10
ISBN 10 : 0470674148
Pages : 448 pages
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A synthesis of contemporary analytical and modeling approaches in population ecology The book provides an overview of the key analytical approaches that are currently used in demographic, genetic, and spatial analyses in population ecology. The chapters present current problems, introduce advances in analytical methods and models, and demonstrate the applications of quantitative methods to ecological data. The book covers new tools for designing robust field studies; estimation of abundance and demographic rates; matrix population models and analyses of population dynamics; and current approaches for genetic and spatial analysis. Each chapter is illustrated by empirical examples based on real datasets, with a companion website that offers online exercises and examples of computer code in the R statistical software platform. Fills a niche for a book that emphasizes applied aspects of population analysis Covers many of the current methods being used to analyse population dynamics and structure Illustrates the application of specific analytical methods through worked examples based on real datasets Offers readers the opportunity to work through examples or adapt the routines to their own datasets using computer code in the R statistical platform Population Ecology in Practice is an excellent book for upper-level undergraduate and graduate students taking courses in population ecology or ecological statistics, as well as established researchers needing a desktop reference for contemporary methods used to develop robust population assessments.