View source: R/create_biodata.R
create_biodata | R Documentation |
This function creates a data list that contains remaining biological data for a stock assessment
create_biodata(
nsex = 1,
narea = 1,
ages,
years,
length_bin,
mid_length_bin,
nbin,
bin_width,
length_CV,
annual_weight_path,
monthly_weight_path,
species,
species_labels,
skip_nrows,
lw_a = 0.01,
lw_b = 3,
k,
t0 = -0.1,
winf,
maturity_at_age,
natural_mortality_at_age
)
nsex |
Number of sexes of the species. |
narea |
Number of areas. |
ages |
A vector of ages. |
years |
A vector of years for extracting EwE data. |
length_bin |
A vector of length bins. |
mid_length_bin |
A vector of middle point of the length bins. |
nbin |
Total number of bins. |
bin_width |
Width of bins. |
length_CV |
CV about length. |
annual_weight_path |
A character string shows path to Ecosim annual weight-at-age output file is located. |
monthly_weight_path |
A character string shows path to Ecosim monthly weight-at-age output file is located. |
species |
The species to create fishery for. A vector of column names from the catch_annual.csv. |
species_labels |
Customized names for species columns. |
skip_nrows |
integer; the number of lines of the data file to skip before reading data. |
lw_a |
Length-weight coefficients a. W=a*L^b. Default EwE value is 0.01. |
lw_b |
Length-weight coefficients b. W=a*L^b. Default EwE value is 3. |
k |
Growth rate parameter of the von Bertalanffy model. |
t0 |
Theoretical age at size 0. Default EwE value is -0.1. |
winf |
Asymptotic average weight. EwE weight-at-age calculated as Wa = (1-exp(k*age))^3. |
maturity_at_age |
A vector of maturity-at-age value or time-varying maturity-at-age matrix with rows present years and columns represent ages. |
natural_mortality_at_age |
A vector of natural mortality-at-age value or time-varying natural mortality-at-age matrix with rows present years and columns represent ages. |
The function takes EwE input or output data to create weight-at-age matrix, maturity-at-age matrix,
A data list that includes biological data for set up a stock assessment.
Other create_data functions:
create_fishery()
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