# Rank sites by EAR The `rank_sites_DT` (DT option) and `rank_sites` (data frame option) functions create tables with one row per site. Columns represent the maximum or mean EAR (depending on the mean_logic argument) for each category ("Chemical Class", "Chemical", or "Biological") and the frequency of the maximum or mean EAR exceeding a user specified hit_threshold. ```r rank_sites_DT( chemical_summary, category = "Biological", mean_logic = FALSE, sum_logic = TRUE, hit_threshold = 0.1 ) rank_sites( chemical_summary, category, hit_threshold = 0.1, mean_logic = FALSE, sum_logic = TRUE ) ``` ## Arguments - `chemical_summary`: Data frame from `get_chemical_summary`. - `category`: Character. Either "Biological", "Chemical Class", or "Chemical". - `mean_logic`: Logical. `TRUE` displays the mean sample from each site, `FALSE` displays the maximum sample from each site. - `sum_logic`: Logical. `TRUE` sums the EARs in a specified grouping, `FALSE` does not. `FALSE` may be better for traditional benchmarks as opposed to ToxCast benchmarks. - `hit_threshold`: Numeric threshold defining a "hit". ## Returns data frame with one row per site, and the mas or mean EAR and frequency of hits based on the category. ## Details The tables show slightly different results for a single site. Rather than multiple columns for categories, there is now 1 row per category (since the site is known). ## Examples ```r # This is the example workflow: path_to_tox <- system.file("extdata", package = "toxEval") file_name <- "OWC_data_fromSup.xlsx" full_path <- file.path(path_to_tox, file_name) tox_list <- create_toxEval(full_path) ACC <- get_ACC(tox_list$chem_info$CAS) ACC <- remove_flags(ACC) cleaned_ep <- clean_endPoint_info(end_point_info) filtered_ep <- filter_groups(cleaned_ep) chemical_summary <- get_chemical_summary(tox_list, ACC, filtered_ep) stats_df <- rank_sites(chemical_summary, "Biological") rank_sites_DT(chemical_summary, category = "Biological") rank_sites_DT(chemical_summary, category = "Chemical Class") rank_sites_DT(chemical_summary, category = "Chemical") ```

rank_sites_DT function