# Hierarchical Bayesian Analysis of North American BBS Data

## Documentation for package ‘bbsBayes’ version 2.4.1

- DESCRIPTION file.

## Help Pages

bird_sample | Sample point count data per species (Pacific Wren only)
fetch_bbs_data | Fetch Breeding Bird Survey dataset
generate_indices | Generate regional annual indices of abundance continent and strata and optionally for countries, states/provinces, or BCRs from analyses run on the stratifications that support these composite regions
generate_map | Generate a map of trends by strata.
generate_trends | Generate regional trends continent and strata and optionally for countries, states/provinces, or BCRs from analyses run on the stratifications that support these composite regions
geofacet_plot | Generate a geofacet plot of population trajectories by province/state
get_composite_regions | Get the area of each strata
get_final_values | Get final values of JAGS model
get_mcmc_list | Obtain MCMC list from jagsUI object
get_prepared_data | Get the prepared species dataset used for JAGS
get_strata_area | Get the area of each strata
load_bbs_data | Load Breeding Bird Survey dataset into R Session
load_map | Load a map of of the geographic strata.
load_sample_data | Load Sample Breeding Bird Survey dataset into R Session
lppd | Calculate log posterior predictive density
model_to_file | Save model to text file
plot_indices | Generate plots of index trajectories by stratum
prepare_data | Wrangle data to use for modelling input
route_sample | Sample route data per year run (Pacific Wren only)
run_model | Run JAGS model for prepared species data
r_hat | Generate Gelman-Rubin's R-Hat statistic
species_sample | Sample North American bird species list (Pacific Wren only)
stratify | Stratify raw Breeding Bird Survey data