LeMans_param-class: An S4 class representing the inputs of the LeMans model
In LeMaRns: Length-Based Multispecies Analysis by Numerical Simulation

Description Details Slots

An S4 class representing the inputs of the LeMans model

Sets the class of a LeMansParam object, which is then used to run the LeMans model.

nsc: A numeric value representing the number of length classes in the model.
nfish: A numeric value representing the number of fish species in the model.
phi_min: A numeric value representing the time step of the model.
l_bound: A numeric vector of length nsc representing the lower bounds of the length classes.
u_bound: A numeric vector of length nsc representing the upper bounds of the length classes.
mid: A numeric vector of length nfish representing the mid-point of the length classes.
species_names: A numeric or character vector of length nfish that denotes the names of the species in the model.
Linf: A numeric vector of length nfish representing the mid-point of the length classes.
W_a: A numeric vector representing the parameter a in the length-weight conversion.
W_b: A numeric vector representing the parameter b in the length-weight conversion.
k: k A numeric vector of length nfish representing the von Bertalanffy growth parameter (1/yr) for each species.
Lmat: A numeric vector of length nsc representing the length at which 50% of the individuals are mature.
mature: A matrix with dimensions nsc and nfish with elements in the range 0-1 representing the proportion of mature individuals of each species in each length class.
sc_Linf: A numeric vector of length nsc representing the length class at which each species reaches its asymptotic length.
wgt: A matrix with dimensions nsc and nfish representing the weight of each species in each length class.
phi: A matrix with dimensions nsc and nfish representing the proportion of individuals that leave each length class.
ration: A matrix with dimensions nsc and nfish representing the amount of food required for fish of a given species and length class to grow according to the von Bertalanffy growth curve in a time step.
other: A numeric value representing the amount of other food (g) available from prey that is not explicitly represented in the model.
M1: A matrix of dimensions nsc and nfish representing the natural mortality of each species for each length class.
suit_M2: A list object of length nfish. Each element in the list is an array of dimensions nsc, nsc and nfish containing a value between 0 and 1 representing prey preference and prey suitability for each species and length class.
Qs: An array of dimensions nsc, nfish and length(gear) representing the catchability of each species by each of the fishing gears.
stored_rec_funs: A list object of length rec_fun where each element includes the stock recruitment function for a given species. If an invalid recruitment function is selected, NULL is returned and a warning message is shown.
eps: A numeric value specifying a numerical offset. The default value is 1e-5.
recruit_params: A list object of length nfish specifying the parameters for the recruitment function.