Simulations: Generate simulations for stochastic modeling of population...

In jasondubois/spopmodel: Methods for and Application of Fish Population Dynamics Model

Description

Simulate environmental stochasticity for surivial, spawning, and number of eggs using age-specific empirical data. Simulated data are used by PopProjections to calculate population trajections (lambda).

Usage

Simulations(
  data,
  prob,
  std,
  recruitment = 5,
  minb = 0,
  maxb = NULL,
  iters = 10,
  seed = NULL,
  type = c("survival", "spawning", "numeggs")
)

Arguments

data	Dataframe containing age-specific probabilities for survival, spawning, or number of eggs along with standard deviations (errors)
prob	Column name in data containing age-specific probabilities or count.
std	Column name in data containing error of probabilities.
recruitment	Used only for "survival" option. Value (default = 5) denotes period of successful recruitment.
minb	Used only for "numeggs" option. Value passed on to stretchbetaval; default = 0.
maxb	Used only for "numeggs" option. Value passed on to stretchbetaval; default = NULL; if NULL value will be 3 times data[[prob]]
iters	Scalar integer. Number of iterations to perform. Default 10; function will slow with higher (i.e., > 5000) value.
seed	Numeric value passed to set.seed to ensure repeatability.
type	Scalar character as one of three options: "survival"; "spawning"; or "numeggs". Choose one based on desired simulation. Default = "survival".

Value

A matrix of model simulations (varies depending on argument supplied to type). Matrix is of class simulations.

Examples

# code here

jasondubois/spopmodel documentation built on Dec. 4, 2019, 9:12 p.m.