Simulate from a spatial/spatiotemporal model

sdmTMB_sim( mesh, x, y, range, time_steps = 1L, X = NULL, betas = NULL, family = gaussian(link = "identity"), rho = 0, sigma_O = 0.1, sigma_E = 0, sigma_V = rep(0, length(betas)), phi = 0.01, thetaf = 1.5, df = 3, seed = sample.int(1e+06, 1), list = FALSE, size = NULL )

mesh | Output from |
---|---|

x | A vector of x coordinates. Should match |

y | A vector of y coordinates. Should match |

range | Parameter that controls the decay of spatial correlation. |

time_steps | The number of time steps. |

X | An optional covariate design matrix formatted as a list with each
element of the list representing a slice in time. If ommitted and |

betas | A vector of beta values (design-matrix fixed-effect coefficient
values). If a random walk ( |

family | Family as in |

rho | Spatiotemporal correlation between years; should be between -1 and 1. |

sigma_O | SD of spatial process (Omega). |

sigma_E | SD of spatiotemporal process (Epsilon). Can be scalar or vector for time-varying model. |

sigma_V | A vector of standard deviations of time-varying random walk on parameters. Set to 0 for parameters that should not vary through time. |

phi | Observation error scale parameter. |

thetaf | Tweedie p (power) parameter; between 1 and 2. |

df | Student-t degrees of freedom. |

seed | A value with which to set the random seed. |

list | Logical for whether output is in list format. If |

size | Specific for the binomial family, vector representing binomial N. If not included, defaults to 1 (bernoulli) |

A data frame where:

`omega_s`

represents the simulated spatial random effects.`epsilon_st`

represents the simulated spatiotemporal random effects.`eta`

is the true value in link space`mu`

is the true value in inverse link space.`observed`

represents the simulated process with observation error.`b_...`

contain the beta values for each covariate used to simulate each time slice.`cov_...`

covariate values for each observation.

# \donttest{ set.seed(42) x <- runif(50, -1, 1) y <- runif(50, -1, 1) N <- length(x) time_steps <- 6 X <- model.matrix(~ x1, data.frame(x1 = rnorm(N * time_steps))) loc <- data.frame(x = x, y = y) mesh <- make_mesh(loc, xy_cols = c("x", "y"), cutoff = 0.1) s <- sdmTMB_sim( x = x, y = y, mesh = mesh, X = X, betas = c(0.5, 0.7), time_steps = time_steps, rho = 0.5, phi = 0.2, range = 0.8, sigma_O = 0, sigma_E = 0.3, seed = 123, family = gaussian() ) mesh <- make_mesh(s, xy_cols = c("x", "y"), cutoff = 0.1) m <- sdmTMB( data = s, formula = observed ~ x1, time = "time", spde = mesh, ar1_fields = TRUE, include_spatial = FALSE ) tidy(m, conf.int = TRUE)#> term estimate std.error conf.low conf.high #> 1 (Intercept) 0.4150763 0.06837053 0.2810725 0.5490801 #> 2 x1 0.6948517 0.01776395 0.6600350 0.7296684#> term estimate std.error conf.low conf.high #> 1 range 0.6200721 NA 0.3784356 1.0159968 #> 2 phi 0.2111023 NA 0.1766060 0.2523366 #> 3 sigma_E 0.3096089 NA 0.2566540 0.3734900 #> 4 rho 0.4973067 NA 0.2313428 0.6941057