multi_init_simulation: Simulate multiple 1-3D Markovian Stochastic Differential...

In simlandr: Simulation-Based Landscape Construction for Dynamical Systems

Simulate multiple 1-3D Markovian Stochastic Differential Equations

Description

Simulate multiple Monte Carlo simulations of 1-3D Markovian Stochastic Differential Equations from a grid or random sample of initial values. Parallel processing is supported. To register a parallel backend, use future::plan(). For example, future::plan(future::multisession). For more information, see future::plan(). Functions imported from other programming languages, such as C++ or Python functions, may not work in parallel processing. If you are uncertain whether there are unknown stable states of the system that are difficult to reach, it is recommended to start with running a large number (i.e., increasing R) of short simulations to see if the system reaches to the known stable states.

Usage

multi_init_simulation(
  sim_fun,
  R = 10,
  range_x0,
  sample_mode = c("grid", "random"),
  ...,
  .furrr_options = list(.options = furrr::furrr_options(seed = TRUE)),
  return_object = c("mcmc.list", "raw")
)

Arguments

sim_fun	The simulation function to use. It should accept an argument x0 for the initial values. Other arguments can be passed through ....
R	The number of initial values to sample. If sample_mode is "grid", this will be the number of initial values in each dimension. If sample_mode is "random", this will be the total number of initial values.
range_x0	The range of initial values to sample in a vector of length 2 for each dimension (i.e., ⁠c(<x0_minimum>, <x0_maximum>, <y0_minimum>, <y0_maximum>, <z0_minimum>, <z0_maximum>)⁠).
sample_mode	The mode of sampling initial values. Either "grid" or "random". If "grid", the initial values will be sampled from a grid. If "random", the initial values will be sampled randomly.
...	Additional arguments passed to sim_fun.
.furrr_options	A list of options to be passed to furrr::future_pmap().
return_object	The type of object to return. Either "mcmc.list" or "raw". If "mcmc.list", a list of mcmc objects will be returned. If "raw", a tibble of initial values and raw simulation results will be returned.

Value

A list of mcmc objects or a tibble of initial values and raw simulation results, depending on the value of return_object.

Examples

# Adapted from the example in the Sim.DiffProc package

set.seed(1234, kind = "L'Ecuyer-CMRG")
mu <- 4
sigma <- 0.1
fx <- expression(y, (mu * (1 - x^2) * y - x))
gx <- expression(0, 2 * sigma)

multiple_mod2d <- multi_init_simulation(sim_SDE, range_x0 = c(-3, 3, -10, 10),
R = 3, sample_mode = "grid", drift = fx, diffusion = gx,
N = 1000, Dt = 0.01, type = "str", method = "rk1",
keep_full = FALSE, M = 2)

# The output is a mcmc.list object. You can use the functions
# in the coda package to modify it and perform convergence check,
# for example,

library(coda)
plot(multiple_mod2d)
window(multiple_mod2d, start = 500)
effectiveSize(multiple_mod2d)

simlandr documentation built on April 4, 2025, 1:14 a.m.