2nd Edition

Modelling and Quantitative Methods in Fisheries

By Malcolm Haddon Copyright 2011
    465 Pages 140 B/W Illustrations
    by Chapman & Hall

    With numerous real-world examples, Modelling and Quantitative Methods in Fisheries, Second Edition provides an introduction to the analytical methods used by fisheries’ scientists and ecologists. By following the examples using Excel, readers see the nuts and bolts of how the methods work and better understand the underlying principles. Excel workbooks are available for download from CRC Press website.

    In this second edition, the author has revised all chapters and improved a number of the examples. This edition also includes two entirely new chapters:

    • Characterization of Uncertainty covers asymptotic errors and likelihood profiles and develops a generalized Gibbs sampler to run a Markov chain Monte Carlo analysis that can be used to generate Bayesian posteriors
    • Sized-Based Models implements a fully functional size-based stock assessment model using abalone as an example

    This book continues to cover a broad range of topics related to quantitative methods and modelling. It offers a solid foundation in the skills required for the quantitative study of marine populations. Explaining important and relatively complex ideas and methods in a clear manner, the author presents full, step-by-step derivations of equations as much as possible to enable a thorough understanding of the models and methods.

    Fisheries and Modelling
    Fish Population Dynamics
    The Objectives of Stock Assessment
    Characteristics of Mathematical Models
    Types of Model Structure

    Simple Population Models
    Assumptions—Explicit and Implicit
    Density-Independent Growth
    Density-Dependent Models
    Responses to Fishing Pressure
    The Logistic Model in Fisheries
    Age-Structured Models
    Simple Yield-per-Recruit

    Model Parameter Estimation
    Models and Data
    Least Squared Residuals
    Nonlinear Estimation
    Bayes’ Theorem
    Concluding Remarks

    Computer-Intensive Methods
    Randomization Tests
    Jackknife Methods
    Bootstrapping Methods
    Monte Carlo Methods
    Bayesian Methods
    Relationships between Methods
    Computer Programming

    Randomization Tests
    Hypothesis Testing
    Randomization of Structured Data

    Statistical Bootstrap Methods
    The Jackknife and Pseudo Values
    The Bootstrap
    Bootstrap Statistics
    Bootstrap Confidence Intervals
    Concluding Remarks

    Monte Carlo Modelling
    Monte Carlo Models
    Practical Requirements
    A Simple Population Model
    A Non-Equilibrium Catch Curve
    Concluding Remarks

    Characterization of Uncertainty
    Asymptotic Standard Errors
    Percentile Confidence Intervals Using Likelihoods
    Likelihood Profile Confidence Intervals
    Percentile Likelihood Profiles for Model Outputs
    Markov Chain Monte Carlo (MCMC)

    Growth of Individuals
    Growth in Size
    von Bertalanffy Growth Model
    Alternatives to von Bertalanffy
    Comparing Growth Curves
    Concluding Remarks

    Stock Recruitment Relationships
    Recruitment and Fisheries
    Stock Recruitment Biology
    Beverton–Holt Recruitment Model
    Ricker Model
    Deriso’s Generalized Model
    Residual Error Structure
    The Impact of Measurement Errors
    Environmental Influences
    Recruitment in Age-Structured Models
    Concluding Remarks

    Surplus Production Models
    Equilibrium Methods
    Surplus Production Models
    Observation Error Estimates
    Beyond Simple Models
    Uncertainty of Parameter Estimates
    Risk Assessment Projections
    Practical Considerations

    Age-Structured Models
    Types of Models
    Cohort Analysis
    Statistical Catch-at-Age
    Concluding Remarks

    Size-Based Models
    The Model Structure

    Appendix: The Use of Excel in Fisheries




    Malcolm Haddon is a senior fisheries modeller for CSIRO in Hobart, Tasmania, Australia. Prior to joining CSIRO, Dr. Haddon was an associate professor at the University of Tasmania, head of fisheries at Australian Maritime College, a senior research fellow at the University of Sydney, editor of the New Zealand Journal of Marine and Freshwater Research, and a lecturer at Victoria University of Wellington. He has conducted stock assessments on Tasmanian rock lobster, giant crab, and abalone. Now at CSIRO, he continues to produce stock assessments of abalone but also for an array of Australian Commonwealth fisheries.

    The text remains true to the author’s initial aim of providing an introduction to the analytical methods currently being used in quantitative biology and fisheries science. It is important to remember when reading this book that there are few texts that students can truly consult on fisheries science without a detailed understanding of stock assessment and fisheries management practices—this text continues to bridge that gap.
    The material has been revised and improvements made to a number of the examples. Two concerns and reservations that I commented on in my previous review have been addressed by the inclusion of two new chapters—one on characterizing uncertainty covering asymptotic errors and likelihood profiles, and the other on size-based models using abalone as an example. The book is lavishly illustrated throughout with the use of Microsoft Excel workbooks which adds to the flexibility, availability and ease of use of the text. I recommend the text both as a course companion and for private study.
    Carl M. O’Brien, International Statistical Review, 2012

    This update of Malcolm Haddon’s book is timely and appreciated. The authors breadth of interest and experience really comes through. Fisheries science, and much of ecological science, has become highly numerical. Modelling, statistics, and scientific programming are now sought-after skills. This book doesn’t just tell you about these, but gives you the tools, and even the R code to do it. I would expect everyone from graduate students through to professionals to gain useful knowledge from this book.
    - Matt Dunn, NIWA

    Praise for the First Edition:
    The book is a good introduction to modeling for students and practitioners. The emphasis is on population models, with chapters on parameter estimation, randomization tests, resampling methods, Monte Carlo methods, stock-recruitment, and age-structures models. One helpful feature is the use of spreadsheet examples to illustrate the methods.
    Fisheries, 2002