Predict expected scores for macroinvertebrate indices — predict_indices

The predict_indices function mirrors the functionality of the RICT model available on the MS Azure platform (https://gallery.azure.ai/Experiment/RICT-package-2). Specifically, it uses environmental (ENV) data from Ecology Data Explorer to generate expected scores under minimally impacted reference conditions for 80 indices, plus probabilities for RIVPACS end-groups. No classification is undertaken.

Usage

predict_indices_old(env_data = x, save = FALSE, save_dir = getwd())

Arguments

env_data: A data frame or tibble containing site-level environmental data in Environment Agency Ecology Data Explorer format (as produced by the import_env function).
save: Specifies whether or not expected indices data should be saved as a rds file (for future use); Default = TRUE.
save_dir: Path to folder where expected indices data is to be saved; Default = Current working directory.

Value

Tibble containing expected scores for macroinvertebrate indices plus end-group probabilities. The RICT Technical Specification and the RIVPACS IV End Group Descriptions are available at https://www.fba.org.uk/FBA/Public/Discover-and-Learn/Projects/User%20Guides.aspx

Details

All data validation and transformation (conversion) are done in this function using functions predefined in HelperFunctionsv1.R. Predictions are made using PredictionfunctionsV2.R.

The function will modify the standard RICT output, renaming "SITE" as "biol_site_id" (standardised column header for biology sites).

References

FBA, 2020. River Invertebrate Classification Tool (RICT2) User Guide V1.5 (2020) Available at: https://www.fba.org.uk/FBA/Public/Discover-and-Learn/Projects/User%20Guides.aspx

Examples

# Generate expected scores for macroinvertebrate indices, using environmental data for site(s) of interest.
# Save generated dataset as .RDS file.
# predict_indices(env_data = env_data,
#                 save = TRUE)