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osmose-model
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Software Components Reading Outputs
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Software Components Reading Outputs
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Home
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Allocating Java memory for OSMOSE experiments
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Bioeconomic Module Calibration
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Bioeconomic Module Concepts and Assumptions
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Bioeconomic Module Data Requirements
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Bioeconomic Module Mathematical Formulation
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Bioeconomic Module Parameters
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Bioeconomic Module Scenarios and Outputs
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Bioenergetic Module Energy Uptake
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Bioenergetic Module Maintenance
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Bioenergetic Module Maturation
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Bioenergetic Module Mortality
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Bioenergetic Module New Tissue Production
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Bioenergetic Module Reproduction
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Bioenergetic module Simplified equations
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Calibration and Validation
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Calibration and Validation Data Requirements
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Calibration and Validation Diagnostics
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Calibration and Validation Install
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Calibration and Validation Multi Phase Calibration
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Calibration and Validation Objective Functions
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Calibration and Validation Optimisation
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Calibration and Validation Overview
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Calibration and Validation Troubleshooting
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Calibration and Validation Using Calibrar
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Coupling and Environmental Forcing
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Coupling and Environmental Forcing Climate Scenarios
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Coupling and Environmental Forcing Environmental Drivers
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Coupling and Environmental Forcing One Way Coupling
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Coupling and Environmental Forcing Overview
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Coupling and Environmental Forcing Resource Species
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Coupling and Environmental Forcing Two Way Coupling
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Development and Contribution
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Development and Contribution Coding Conventions
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Development and Contribution Development Installation
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Development and Contribution Documentation Standards
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Development and Contribution GitHub Workflow
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Development and Contribution Implementation Details
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Development and Contribution Testing
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Development and Contribution Wiki Editing
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Documentation index
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Ecogenetic Module Genetic Inheritance
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Ecogenetic Module Genetic Structure
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Ecogenetic Module Trait Determinism
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Getting Started
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Getting Started Installing OSMOSE
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Getting Started Running a First Simulation
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Getting Started Running OSMOSE on Datarmor
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Getting Started Software Requirements
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Getting Started Updating a Configuration
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Growth Gompertz
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Growth Von Bertalanffy
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Influx
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Initialisation
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Initialisation Appendix Data layer example
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Initialisation Appendix Direct school based example
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Initialisation Appendix Egg seeding example
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Initialisation Appendix Population initialization block
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Initialisation Appendix Workflow diagram
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Initialisation Concepts
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Initialisation Conclusion
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Initialisation Introduction
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Initialisation Limitations and outlook
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Initialisation Method overview
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Initialisation NetCDF Restart
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Initialisation Other methods
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Initialisation Reconstructed Populations
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Initialisation Relative biomass
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Initialisation Seeding
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Initialisation Summary
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Initialisation Troubleshooting
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Initialisation Workflows
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Inputs and Configuration
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Inputs and Configuration Accessibility Matrices
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Inputs and Configuration Configuration Files
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Inputs and Configuration Fishing Files
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Inputs and Configuration Observation Files
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Inputs and Configuration Resource Forcing
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Inputs and Configuration Species Distribution Maps
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Inputs and Configuration Species Parameters
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Inputs and Configuration Time Series
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LTL Update
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Model Overview
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Model Overview Main Assumptions
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Model Overview Schools
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Model Overview Spatial Domain
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Model Overview Species Types
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Model Overview State Variables
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Model Overview Time Step
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Modules
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Modules Bioeconomic Module
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Modules Bioenergetic Module
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Modules Ecogenetic Module
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Modules Individual Based Fisheries Module
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Modules Multispecies Fisheries Module
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Modules Observation Module
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Modules Stable Isotopes Module
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Mortality Additional mortality
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Mortality Additional mortality Adult mortality
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Mortality Additional mortality Larva mortality
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Mortality Fishing By species mortality
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Mortality Fishing Fisheries
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Mortality Post‐reproduction mortality
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Movement Gradient Based Movements
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Movement Map distribution
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Movement Random Distribution
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Outputs and Observation
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Outputs and Observation Aggregation
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Outputs and Observation Ecosystem Indicators
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Outputs and Observation Optional Outputs
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Outputs and Observation Population Indicators
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Outputs and Observation School Level Outputs
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Outputs and Observation Standard Outputs
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Outputs and Observation Survey Filtering
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Processes
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Processes Detritus
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Processes Fishing
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Processes Growth
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Processes Maturation
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Processes Mortality
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Processes Movement
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Processes Predation
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Processes Reproduction
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Processes Starvation
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Processes Time Step
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Reference
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Reference Algorithms
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Reference Configuration Keys
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Reference Equation synthesis
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Reference Glossary
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Reference Input File Formats
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Reference Output File Formats
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Reference Parameters
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Reference Units
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Release Notes
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Release Notes OSMOSE 4.4.0
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Release Notes OSMOSE 4.4.1
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Release Notes OSMOSE 4.4.2
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Running OSMOSE
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School Init
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Software Components
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Software Components Analysing and Plotting Results
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Software Components Core Simulator
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Software Components Input Pre Processing
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Software Components Overview
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Software Components R Package
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Software Components Reading Outputs
Software Components Reading Outputs
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Software Components Running Simulations
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Species Focal species
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Species LTL species
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Tutorials and Workflows
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Tutorials and Workflows Add a Species
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Tutorials and Workflows Add Fishing
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Tutorials and Workflows Add Resource Forcing
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Tutorials and Workflows Analyse Outputs
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Tutorials and Workflows Build a New Configuration manually 4.3.3
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Tutorials and Workflows Calibrate a Model
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Tutorials and Workflows Run an Existing Configuration
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Tutorials and Workflows Run Scenarios
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Tutorials Workflows Examples
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