stock_sim: Stock simulation

Description Usage Arguments Details Value References Examples

View source: R/stock_sim.R

Description

This function estimates stock size, biomass and yield of a stock from fishing mortality per age class or length group. This function is embedded in the Thompson and Bell model (prediction model: predict_mod).

Usage

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stock_sim(param, age_unit = "year", stock_size_1 = NA, plus_group = NA)

Arguments

param

a list consisting of following parameters:

  • age or midLengths: midpoints of length classes (length-frequency data) or ages (age composition data),

  • meanWeight: mean weight in kg per age class or length group,

  • meanValue: mean value per kg fish per age class or length group,

  • FM: fishing mortality rates per age class or length group,

  • M or Z: natural or total instantaneous mortality rate.

age_unit

indicates if the age groups are per month ("month") or per year ("year"). Default: "year"

stock_size_1

stock size of smallest age/length group

plus_group

indicates age/length group, which should be turned into a plus group (i.e. all groups above are comprised in one group)

Details

better to treat last group always as a plus group... if stock size 1 not provided assumes 1000 as intital population size make sure that FM is also in same unit as the classes, e.g. when classes in months than also FM has to be provided in 1/months

Value

A list with the input parameters and following list objects:

References

Garcia, S. and N.P. van Zalinge, 1982. Shrimp fishing in Kuwait: methodology for a joint analysis of the artisanal and industrial fisheries. pp. 119-142 In: Report on the Workshop on assessment of the shrimp stocks of the west coast of the Gulf between Iran and the Arabian Peninsula. Fisheries development in the Gulf. Rome, FAO, FI:DP/RAB/80/015/1, 163 p.

Millar, R. B., & Holst, R. (1997). Estimation of gillnet and hook selectivity using log-linear models. ICES Journal of Marine Science: Journal du Conseil, 54(3):471-477

Sparre, P., Venema, S.C., 1998. Introduction to tropical fish stock assessment. Part 1. Manual. FAO Fisheries Technical Paper, (306.1, Rev. 2). 407 p.

Examples

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# age-based stock simulation
data(shrimps)

# option 1: without plus group
stock_sim(shrimps, age_unit = "month")

# option 2: with plus group
stock_sim(param = shrimps, age_unit = "month", plus_group = 11)

# length-based stock simulation
data(hake)

stock_sim(param = hake, stock_size_1 = 98919.3)

TropFishR documentation built on Jan. 9, 2018, 1:07 a.m.