Function reference
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Fish - R6 Class Representing a Fish
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FishBase_and_RAM - Database of stock-recruit, population-dynamics, size, growth, maturity, and mortality parameters. Pull Pulled from Thorson's FishLife package on 2022/03/06, as loading FishLife itself generated far too many dependencies. Will consider fix at later date
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Metier - R6 Class Representing a fishing fleet
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assign_ref_points() - Assign References Points
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assign_ssbmsy() - Find Baseline SSBmsy
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bird - Title
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create_critter() - Create Critter
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create_fleet() - Create Fleet
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find_ancestors() - Find ancestors Ported fromhttps://github.com/James-Thorson-NOAA/FishLife/blob/main/R/Find_ancestors.R
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find_msy()find_msy() - Find MSY Referemce Points
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fine_tune_costs() - Title
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fleet_tuner() - fleet tuner
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generate_length_at_age_key() - generate_length_to_age_key
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get_traits() - Get Traits
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marlin_pal() - marlin pal palette
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optimize_mpa() - Optimize MPA network
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place_mpa() - Place MPA
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plot_marlin() - Plot Marlin generates time series, spatial, or length composition plots from marlin run
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prep_movement() - Prepare movement matrix
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process_marlin() - Process Marlin
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quota_finder() - Title
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search_species() - Search species: Ported from https://github.com/James-Thorson-NOAA/FishLife/blob/main/R/Search_species.R
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simmar() - simmar is the wrapper function for the marlin package
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theme_marlin() - ggplot2 theme for marlin
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tune_fleets() - tune_fleets tunes parameters of the fleet model to achieve desired initial conditions. note that this is not exact: post-tuning values will not perfectly match inputs since for example some tuning steps depend on prior tuning step, making it difficult to tune everything at once.