simulate_parameters: simulate all unknowns in the MSE

In andybeet/hydramse: Performs MSE using Hydra

Description

Currently only simulate stock recruitment parameters and other food. See Method section below for more details

Usage

simulate_parameters(
  seed = NULL,
  stockRecruitParams = darwinData,
  simulationRules = darwinRules,
  SRFunctionChoice = NULL
)

Arguments

seed	Integer. Set seed for testing or reproducability. Default = NULL
stockRecruitParams	Data set similar to lazily loaded darwinData dataset
simulationRules	Set of rules set up similar to lazily loaded darwinRules dataset
SRFunctionChoice	Numeric Vector. Whether the Stock recruitment function for each species should be piecewise model (hockey, generalized,= 0) or shepherd (1) or a random choice of either (Default = NULL)

Value

List

otherFood	simulated value of otherFood variable
alphaShepherd	simulated value of alpha for the shepherd model
betaShepherd	simulated value of beta for the shepherd model
shapeShepherd	value of the shape parameter. Predefined by user in darwinRules$SRType
alphaHockey	simulated value of alpha (slope) for the hockey stick model
betaHockey	simulated value of beta (-alpha) for the hockey stick model
shapeHockey	simulated value of the breakpoint for the hockey stick model
alphaSegmented	simulated value of alpha (slope) for the generalized segmented model
betaSegmented	simulated value of beta (change in the slope) for the generalized segmented model
shapeSegmented	simulated value of breakpoint for the generalized segmented model
recSigma	Values of sigma to be used in Hydra for each species/stock recruitment function chosen
recType	Denotes the form of the SR model used in Hydra. see field recType in hydradata::hydraDataList

Method

Methods and darwinRules dataset are described in the vignette simulation_documentation The data set darwinData is defined in ?darwinData and explained futher in the vignette darwinData_explained

andybeet/hydramse documentation built on April 16, 2021, 5:23 a.m.