Package index • mbg

MBG Model Runner

Model runner class

MbgModelRunner: MBG model runner class

MBG core inputs

Functions to build the ID raster and load model covariates

build_id_raster(): Build ID raster

load_covariates(): Load covariates

make_world_template_raster(): Make world template raster

MBG model fitting and prediction

Individual functions for model fitting and prediction. These can also be executed through the MbgModelRunner class.

fit_inla_model(): Fit INLA model

prepare_inla_data_stack(): Prepare data stack for INLA

run_regression_submodels(): Run regression sub-models

generate_cell_draws_and_summarize(): Generate cell draws and summary rasters from INLA model

summarize_draws(): Summarize draws

values_to_raster(): Insert values into a raster

Model validation

Functions for generating predictive validity metrics. These can also be executed through the MbgModelRunner class.

log_posterior_density(): Generate log posterior predictive density from a geostatistical surface onto point data

rmse_raster_to_point(): Generate RMSE from an estimated raster surface and point data

Pixel-to-polygon aggregation

Functions to aggregate rasters and pixel-level predictive draw matrices to polygon boundaries. These can also be executed through the MbgModelRunner class.

aggregate_draws_to_polygons(): Aggregate grid cell draws to polygons

aggregate_raster_to_polygons(): Aggregate a raster to polygons

build_aggregation_table(): Build aggregation table

calculate_pixel_fractions_single_polygon(): Calculate fractional pixels in a polygon

Other

Miscellaneous helper functions

dissolve_sf_by_attribute(): Dissolve sf object by attribute

.onAttach(): Behavior when attaching the mbg package

logging_get_timer_log(): Get timer log

logging_start_timer(): Start logging timer

logging_stop_timer(): End logging timer

make_time_stamp(): Make time stamp

vif_covariate_select(): Run variance inflation factor (VIF) selection on input covariates