Function reference • sdmTMB

All functions
`add_barrier_mesh()`	Transform a mesh object into a barrier mesh object
`add_utm_columns()` `get_crs()`	Add UTM coordinates to a data frame
`bc_coast`	BC coastline data from ropensci/rnaturalearthhires
`dharma_residuals()`	Get DHARMa residuals
`extract_mcmc()`	Extract MCMC samples from a model fit with `tmbstan::tmbstan()`.
`Beta()` `lognormal()` `nbinom2()` `nbinom1()` `truncated_nbinom2()` `truncated_nbinom1()` `student()` `tweedie()` `censored_poisson()` `delta_gamma()` `delta_lognormal()` `delta_truncated_nbinom2()` `delta_truncated_nbinom1()` `delta_poisson_link_gamma()`	Additional families
`spread_sims()` `gather_sims()`	Extract parameter simulations from the joint precision matrix
`get_index()` `get_cog()`	Extract a relative biomass/abundance index or a center of gravity
`get_index_sims()`	Calculate a population index via simulation from the joint precision matrix
`make_mesh()` `plot(<sdmTMBmesh>)`	Construct an SPDE mesh for sdmTMB
`pcod`	Example data for Pacific Cod
`pcod_2011`	Example data for Pacific Cod (years 2011 and after)
`pcod_mesh_2011`	Example SPDE mesh for the Pacific Cod data (years 2011 and after)
`plot_anisotropy()`	Plot anisotropy
`plot_pc_matern()`	Plot PC Matern priors
`plot_smooth()`	Plot a smooth term from an sdmTMB model
`predict(<sdmTMB>)`	Predict from an sdmTMB model
`sdmTMBpriors()` `normal()` `halfnormal()` `mvnormal()` `pc_matern()`	Prior distributions
`qcs_grid`	Example 2x2km prediction grid for Queen Charlotte Sound
`residuals(<sdmTMB>)`	Residuals method for sdmTMB models
`run_extra_optimization()`	Run extra optimization on an already fitted object
`sanity()`	Sanity check of sdmTMB model
`sdmTMB()`	Fit a spatial or spatiotemporal GLMM with TMB
`sdmTMB_cv()`	Save log likelihoods of k-fold cross-validation for sdmTMB models
`sdmTMB_sim()`	Simulate from a spatial/spatiotemporal model
`sdmTMB_simulate()`	Simulate from a spatial/spatiotemporal model
`sdmTMB_stacking()`	Perform stacking with log scores on `sdmTMB_cv()` output
`sdmTMBcontrol()`	Optimization control options
`simulate(<sdmTMB>)`	Simulate from a fitted sdmTMB model
`tidy(<sdmTMB>)`	Turn sdmTMB model output into a tidy data frame
`visreg_delta()` `visreg2d_delta()`	Plot sdmTMB models with the visreg package

Reference

All functions