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Version 17 (modified by varunr, 13 years ago) (diff)

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Table of Contents

  1. Ecopath with Ecosim version 6
  2. Abstract
  3. 1 Introduction
    1. 1.1 About Ecopath with Ecosim
    1. 1.2 On modelling
  6. 2 Introductory material: Ecopath
    1. 2.1 Mortality for a prey is consumption for a predator
    1. 2.2 The energy balance of a box
    1. 2.3 On the need for input parameters
    1. 2.4 Defining the system
    1. 2.5 Dealing with open system problems
    1. 2.6 Production
    1. 2.7 Consumption
    1. 2.8 Other mortality
    1. 2.9 Representation of multi-stanza life histories in Ecopath, Ecosim and …
  16. 3 Introductory material: Ecosim
    1. 3.1 An overview of Ecosim
    1. 3.2 Ecosim Basics
    1. 3.3 Vulnerabilities in Ecosim
    2. Note about vulnerabilities and the EwE user interface
    1. 3.4 Dealing with dynamic instability in Ecosim / Ecospace
    1. 3.5 Predicting consumption
    1. 3.6 Foraging time and predation risk
    1. 3.7 Time series fitting in Ecosim: evaluating fisheries and environmental …
    1. 3.8 Hints for fitting models to time series reference data
    1. 3.9 Effect of P/B (Z) and vulnerability for time series fitting
    1. 3.10 Predator satiation and handling time effects
    1. 3.11 Modeling switching behavior in Ecosim
    1. 3.12 Compensatory mechanisms
    1. 3.13 Using Ecosim to study compensation in recruitment relationships
    1. 3.14 Compensatory growth
    1. 3.15 Compensatory natural mortality
    1. 3.16 Linking mediation and time forcing functions to trophic interaction …
    1. 3.17 Primary production
    1. 3.18 Nutrient cycling and nutrient limitation in Ecosim
    1. 3.19 Density-dependent changes in catchability
    1. 3.20 Modelling effort dynamics
    1. 3.21 Using Ecosim for Stock Reduction Analysis
    1. 3.22 Hatchery populations in Ecosim
    1. 3.23 Parameter sensitivity
  40. 4 Introductory material: Ecospace
    1. 4.1 An overview of Ecospace
    1. 4.2 Representing seasonal migration in Ecospace
    1. 4.3 Advection in Ecospace
    1. 4.4 Prediction of mixing rates
    1. 4.5 Predicting spatial fishing patterns
    1. 4.6 Numerical solutions
    1. 4.7 Representing multi-stanza life histories in Ecospace
    1. 4.8 Spatial optimization procedures
  49. 5 Ecopath with Ecosim 6: Getting started
    1. 5.1 How to obtain the Ecopath with Ecosim 6 software
    1. 5.2 Software support, copyright and liability
    1. 5.3 Installing and running Ecopath with Ecosim
    1. 5.4 Previous versions
    1. 5.5 Getting help
    1. 5.6 General features of the Graphic User Interface
    1. 5.7 File menu
    1. 5.8 View menu
    1. 5.9 Tools menu
    1. 5.10 Windows menu
    1. 5.11 Help menu
  61. 6 Using Ecopath. Part 1: Ecopath inputs
    1. 6.1 Getting started in Ecopath: The Ecopath menu
    1. 6.2 Edit groups
    1. 6.3 Edit multi-stanza groups
    1. 6.4 Edit fleets
    1. 6.5 Model description
    1. 6.6 Basic input
    1. 6.7 Diet composition
    1. 6.8 Detritus fate
    1. 6.9 Other production
    1. 6.10 Fishery
    1. 6.11 Definition of fleets
    1. 6.12 Landings
    1. 6.13 Discards
    1. 6.14 Discard fate
    1. 6.15 Off-vessel price
    1. 6.16 Non-market price
  78. 7 Using Ecopath. Part 2: Parameterization and outputs
    1. 7.1 Notes on parameterizing an Ecopath model
    1. 7.2 Balancing a model
    1. 7.3 Basic estimates
    1. 7.4 Key indices
    1. 7.5 Mortalities
    1. 7.6 Mortality coefficients
    1. 7.7 Predation mortality
    1. 7.8 Consumption (Ecopath parameterization)
    1. 7.9 Respiration
    1. 7.10 Niche overlap
    1. 7.11 Electivity
    1. 7.12 Search rates
    1. 7.13 Fishery (Ecopath parameterization)
    1. 7.14 Ecopath tools
    1. 7.15 Flow diagram
    1. 7.16 EwE network analysis plugin
    1. 7.17 Trophic level decomposition
    1. 7.18 Summary of flow data
    1. 7.19 Flows and biomasses
    1. 7.20 Primary production required
    1. 7.21 Mixed trophic impact
    1. 7.22 Ascendancy
    1. 7.23 Flow from detritus
    1. 7.24 Cycles and pathways
    1. 7.25 Ecosim network analysis indices (by Sheila Heymans)
  104. 8 Using Ecosim. Part 1: Ecosim inputs
    1. 8.1 Getting started in Ecosim: The Ecosim menu
    1. 8.2 Ecosim parameters
    1. 8.3 Group info
    1. 8.4 Vulnerabilities (flow control: foraging arena parameter)
    1. 8.5 Time series
    1. 8.6 Import time series
    1. 8.7 Mediation
    1. 8.8 Apply mediation
    1. 8.9 Forcing function
    1. 8.10 Apply forcing function (consumer)
    1. 8.11 Apply forcing function (primary producer)
    1. 8.12 Egg production
    1. 8.14 Fleet size dynamics
  118. 9 Using Ecosim. Part 2: Ecosim outputs
    1. 9.1 An Ecosim exercise
    1. 9.2 Run Ecosim
    1. 9.3 Ecosim plot
    1. 9.4 Ecosim results
    1. 9.5 Stock recruitment (S/R) plot (multi-stanza groups only)
    1. 9.6 Ecosim tools
    1. 9.7 Monte Carlo runs
    1. 9.8 Fishing policy search - background
    1. 9.9 Implementing policy optimization in Ecosim
    1. 9.10 Maximize portfolio utility
    1. 9.11 Fit to time series
  130. 10 Using Ecospace. Part 1: Ecospace inputs
    1. 10.1 Getting started in Ecospace: The Ecospace menu
    1. 10.2 Ecospace parameters
    1. 10.3 Define Ecospace habitats
    1. 10.4 Basemap
    1. 10.5 Assign habitats
    1. 10.6 Dispersal
    1. 10.8 Ecospace fishery
    1. 10.9 Edit layers

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