Mixed Effects Models and Extensions in Ecology with R (Statistics for Biology and Health)

Building on the successful __Analysing Ecological Data__ (2007) by Zuur, Ieno and Smith, the authors now provide an expanded introduction to using regression and its extensions in analysing ecological data. As with the earlier book, real data sets from postgraduate ecological studies or research projects are used throughout. The first part of the book is a largely non-mathematical introduction to linear mixed effects modelling, GLM and GAM, zero inflated models, GEE, GLMM and GAMM. The second part provides ten case studies that range from koalas to deep sea research. These chapters provide an invaluable insight into analysing complex ecological datasets, including comparisons of different approaches to the same problem. By matching ecological questions and data structure to a case study, these chapters provide an excellent starting point to analysing your own data. Data and R code from all chapters are available from www.highstat.com. Alain F. Zuur is senior statistician and director of Highland Statistics Ltd., a statistical consultancy company based in the UK. He has taught statistics to more than 5000 ecologists. He is honorary research fellow in the School of Biological Sciences, Oceanlab, at the University of Aberdeen, UK. Elena N. Ieno is senior marine biologist and co-director at Highland Statistics Ltd. She has been involved in guiding PhD students on the design and analysis of ecological data. She is honorary research fellow in the School of Biological Sciences, Oceanlab, at the University of Aberdeen, UK. Neil J. Walker works as biostatistician for the Central Science Laboratory (an executive agency of DEFRA) and is based at the Woodchester Park research unit in Gloucestershire, South-West England. His work involves him in a number of environmental and wildlife biology projects. Anatoly A. Saveliev is a professor at the Geography and Ecology Faculty at Kazan State University, Russian Federation, where he teaches GIS and statistics. He also provides consultancy in statistics, GIS & Remote Sensing, spatial modelling and software development in these areas. Graham M. Smith is a director of AEVRM Ltd, an environmental consultancy in the UK and the course director for the MSc in ecological impact assessment at Bath Spa University in the UK. In This Book The Authors Provide An Expanded Introduction To Using Regression And Its Extensions In Analysing Ecological Data. The First Part Of The Book Is A Largely Non-mathematical Introduction To Linear Mixed Effects Modelling, Glm And Gam, Zero Inflated Models, Gee, Glmm And Gamm. The Second Part Provides Ten Case Studies That Range From Koalas To Deep Sea Research. These Chapters Provide An Invaluable Insight Into Analysing Complex Ecological Datasets, Including Comparisons Of Different Approaches To The Same Problem. By Matching Ecological Questions And Data Structure To A Case Study, These Chapters Provide An Excellent Starting Point To Analysing The Reader's Own Data.--nhbs Environment Bookstore. Limitations Of Linear Regression Applied On Ecological Data -- Things Are Not Always Linear : Additive Modeling -- Dealing With Heterogeneity -- Mixed Effects Modeling For Nested Data -- Violation Of Independence. Part 1 -- Violation Of Independence. Part 2 -- Meet The Exponential Family -- Glm And Gam For Count Data -- Glm And Gam For Absence-presence And Proportional Data -- Zero-truncated And Zero-inflated Models For Count Data -- Generalised Estimation Equations -- Glmm And Gamm -- Estimating Trends For Antarctic Birds In Relation To Climate Change / A.f. Zuur [and Others] -- Large Scale Impacts Of Land-use Change In A Scottish Farming Catchment / A.f. Zuur [and Others] -- Negative Binomial Gam And Gamm To Analyse Amphibian Roadkills / A.f. Zuur [and Others] -- Additive Mixed Modelling Applied On Deep-sea Pelagic Bioluminescent Organisms / A.f. Zuur [and Others] -- Additive Mixed Modelling Applied On Phytoplankton Time Series Data / A.f. Zuur [and Others] -- Mixed Effects Modelling Applied On American Foulbrood Affecting Honey Bees Larvae / A.f. Zuur [and Others] -- Three-way Nested Data For Age Determination Techniques Applied To Cetaceans / E.n. Ieno [and Others] -- Glmm Applied On The Spatial Distribution Of Koalas In A Fragmented Landscape / J.r. Rhodes [and Others] -- A Comparison Of Glm, Gee, And Glmm Applied To Badger Activity Data / N.j. Walker [and Others] -- Incorporating Temporal Correlation In Seal Abundance Data With Mcmc / A.a. Saveliev [and Others] -- Required Pre-knowledge : A Linear Regression And Additive Modelling Example. By Alain F. Zuur ... [et Al.]. Includes Bibliographical References (p. 553-561) And Index. Limitations of linear regression applied on ecological data Things are not always linear : additive modeling Dealing with heterogeneity Mixed effects modeling for nested data Violation of independence. Part 1 Violation of independence. Part 2 Meet the exponential family GLM and GAM for count data GLM and GAM for absence-presence and proportional data Zero-truncated and zero-inflated models for count data Generalised estimation equations GLMM and GAMM Estimating trends for Antarctic birds in relation to climate change / A.F. Zuur ... [et al.] Large scale impacts of land-use change in a Scottish farming catchment / A.F. Zuur ... [et al.] Negative binomial GAM and GAMM to analyse amphibian roadkills / A.F. Zuur ... [et al.] Additive mixed modelling applied on deep-sea pelagic bioluminescent organisms / A.F. Zuur ... [et al.] Additive mixed modelling applied on phytoplankton time series data / A.F. Zuur ... [et al.] Mixed effects modelling applied on American foulbrood affecting honey bees larvae / A.F. Zuur ... [et al.] Three-way nested data for age determination techniques applied to cetaceans / E.N. Ieno ... [et al.] GLMM applied on the spatial distribution of koalas in a fragmented landscape / J.R. Rhodes ... [et al.] A comparison of GLM, GEE, and GLMM applied to badger activity data / N.J. Walker ... [et al.] Incorporating temporal correlation in seal abundance data with MCMC / A.A. Saveliev ... [et al.] Required pre-knowledge : a linear regression and additive modelling example. 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. Explains essential statistical tools for the ecologist. Includes detailed case studies describing how to choose the most appropriate analysis. Uses the R statistical program throughout.