Extended Simple Stock Synthesis

changeDepl | Changes the depletion value for the depletion year in the... |

changeH | Changes the steepness value in the control file |

changeM | Changes the natural mortality value for female and male fish... |

create.Plots | Changes the natural mortality value for female and male fish... |

define_matrix | Create the quant matrix |

fit.mvt | This function calculates the covariance between the... |

get.new.posterior | Calculate the updated posterior probability for the good... |

get.new.wghts | Calculate the new sampling weights based on the likelihood,... |

get.prior | Calculate the prior probabilities for the original good... |

getQuant | Function to pull quantities |

get.seed | Seed Function - this function will generate a seed if one is... |

matchfun | Function to pull quantities |

move.files.fxn | Function that moves and saves the needed files sim.num... |

pars.truncbeta | this function gets parameters of standard beta... |

rbeta.ab | Beta Distribution for steepness |

RepSumFxn | Get Final Run Model Output |

SSS.ais.fxn | This the main AIS code The code will run the initial N sample... |

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