Add new species

Takes a MizerParams object and adds additional species with given parameters to the ecosystem. It sets the initial values for these new species to its steady-state solution in the given initial state of the existing ecosystem. This will be close to the true steady-state if the abundances of the new species are sufficiently low. Hence the abundances of the new species are set so that the maximal biomass density of each new species lies at 1/100 of the community power law. The reproductive efficiencies of the new species are set so as to keep them at that low level.

addSpecies(params, species_params, interaction, initial_effort = NULL)

Arguments

params	A mizer params object for the original system.
species_params	The species parameters of the new species we want to add to the system.
interaction	Interaction matrix. A square matrix giving either the interaction coefficients between all species or only those between the new species. In the latter case all interaction between an old and a new species are set to 1. If this argument is missing, all interactions involving a new species are set to 1.

Value

An object of type MizerParams

Details

After adding the new species, the background species are not retuned and the system is not run to steady state. You would have to call retuneBackground and steady explicitly.

See also

removeSpecies

Examples

if (FALSE) {
params <- newTraitParams(max_w_inf = 5000)
params <- markBackground(params)
a_m <- 0.0085
b_m <- 3.11
L_inf_m <- 24.3
L_mat <- 11.1
species_params <- data.frame(
    species = "mullet",
    w_min = 0.001,
    w_inf = a_m*L_inf_m^b_m,
    w_mat = a_m*L_mat^b_m,
    beta = 283,
    sigma = 1.8,
    z0 = 0,
    alpha = 0.6,
    sel_func = "knife_edge",
    knife_edge_size = 100,
    gear = "knife_edge_gear",
    k = 0,
    k_vb = 0.6,
    a = a_m,
    b = b_m
)
params <- addSpecies(params, species_params)
plotSpectra(params)
sim <- project(params, t_max=50)
plotBiomass(sim)
}