Description Usage Arguments Value
View source: R/gLV_simulations.R
Use a generalized stochastic Lotka-Volterra model to (mechanistically) simulate count data This code is adapted directly from Tredennick et al., 2017
1 2 3 4 5 6 7 8 9 10 11 12 13 14 | generate_series(
S,
NiTh,
AsigE,
rm,
al,
K,
sigO,
start_time,
end_time,
perturbations_global,
perturbation_sd,
alpha
)
|
S |
number of species to simulate |
NiTh |
parameter returned by generate_innate_params (near-steady state abundances?) |
AsigE |
parameter returned by generate_env_link (per-species response to environmental perturbation) |
rm |
parameter returned by generate_env_link (per-species growth rates) |
al |
parameter returned by generate_env_link (cooperative/competitive dynamics) |
K |
per-species carrying capacities |
sigO |
magnitude of observational noise |
start_time |
time point at which to begin "recording" the series (previous time points will be discarded as burn-in) |
end_time |
full length of series to simulate (including burn-in) |
perturbations_global |
global environmental perturbation matrix |
alpha |
proportion of perturbations_global in incorporate into the local perturbations matrix |
perturbations_sd |
standard deviation of zero-mean perturbations |
named list of simulated species series and generated parameters
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