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Introduction to Fisheries Stock Assessment and Stock Synthesis

24 jun. 2014 - 01 jul. 2014

Agenda Descripción Info/Docs


Programa(s) a cargo: Programa de Evaluación de Poblaciones

Equipo: Carolina Minte-Vera

Dr. Steven Teo (NOAA/SWFSC stock assessment scientist)
Dr. Carolina Minte-Vera (IATTC stock assessment scientist)

Teaching Assistant:
Dr. Yi Xu (NOAA/NRC Postdoctoral Scholar)

Tipo Detalles Fechas Tema
T1 Clase teórica 24 jun., Mañana Introduction to Fisheries Stock Assessment
Simple Population Models
Probability density functions
Using Likelihoods
Fitting Data to Models
Lab1 Laboratorio 24 jun., Tarde Fitting Surplus Production Models (Sum of Squares and Likelihoods)
T2 Clase teórica 25 jun., Mañana Introduction to Age-Structure (mortality, growth)
Yield-Per-Recruit Analysis
Stock and Recruitment
Catchability and Selectivity
Age-structured Stock Assessment Models
Lab2 Laboratorio 25 jun., Tarde Yield-Per-Recruit Analysis
Combining Yield-Per-Recruit and Stock-Recruitment
Simple Age-structured Production Model
T3 Clase teórica 26 jun., Mañana Integrated Analysis: Statistical Catch-at-Age Models
Introduction to Stock Synthesis (SS)
Simple Models in SS
Understanding and Plotting SS Output
SS Model Development (examples of SS models in different configurations)
Debugging SS
Lab3 Laboratorio 26 jun., Tarde Simple SS Models
Debugging simple SS Models
T4 Clase teórica 27 jun., Mañana Growth
Maturity and Fecundity
Natural and Fishing Mortality
Initial Conditions
Catchability and Selectivity
Lab4 Laboratorio 27 jun., Tarde Group Project: Develop a SS model (Data provided or bring your own)
Lab5 Laboratorio 28 jun., Día completo Group Project: Continue SS Model Development
Lab6 Laboratorio 30 jun., Día completo Group Project: Continue SS Model Development
Lab7 Laboratorio 01 jul., Día completo Group Project: Present SS Models (Student presentations)
Final Discussion


Course Objective and Description
This 7-day course introduces modern statistical models used in fisheries stock assessment and natural resource modeling, through lectures, labs, and a small group project related to fishery stock assessment model development. It is organized as a series of morning sessions that focus on theoretical concepts and afternoon work sessions. These afternoon sessions will rely on different software environments such as R, MS Excel and the Stock Synthesis (SS) Stock Assessment modeling package. The first 2 days will be a quick review of introductory stock assessment topics like: 1) simple population models, 2) fitting models to data, 3) likelihoods, 4) yield-per-recruit analysis, and 5) age-structured models. In the next 5 days, we will concentrate on using Stock Synthesis as the modeling platform to perform a fully-integrated age-structured analysis, from runningand debugging simple models to constructing a basic SS model from provided data (or bring your own) as a small group project. Projects will be presented to the class on the final day.

Some knowledge of basic probability/statistical theory, population dynamics, and familiarity with MS Excel and R is strongly preferred.

Recommended Readings:
  • Haddon, M. 2011. Modeling and Quantitative Methods in Fisheries, Chapman & Hall/CRC.
  • Quinn, T., and R. Deriso. 1998. Quantitative Fish Dynamics. Oxford University Press.
  • Fournier, D., and C.P. Archibald. 1982. A general theory for analyzing catch at age data. Canadian Journal of Fisheries and Aquatic Science 39: 1195-1207.
  • Methot, R.D. Jr. and C.R. Wetzel. (2013) Stock synthesis: A biological and statistical framework for fish stock assessment and fishery management. Fisheries Research142: 86-99.
  • Hilborn, R., and M. Mangel. 1997. The Ecological Detective: Confronting Models with Data. Monographs in Population Biology 28, Princeton University Press.