# EndPoint boxplots with faceting option The `plot_tox_endpoints2` function creates a set of boxplots representing EAR values for each endPoint based on the selected data. A subset of data is first chosen by specifying a group in the `filterBy` argument. The `filterBy` argument must match one of the unique options in the category. For example, if the category is "Chemical Class", then the `filterBy` argument must be one of the defined "Chemical Class" options such as "Herbicide". ```r plot_tox_endpoints2( cs, ..., category = "Chemical", filterBy = "All", manual_remove = NULL, hit_threshold = NA, mean_logic = FALSE, sum_logic = TRUE, font_size = NA, title = NA, x_label = NA, palette = NA, top_num = NA ) ``` ## Arguments - `cs`: Data.frame from `get_chemical_summary`. - `...`: Additional group_by arguments. This can be handy for creating facet graphs. - `category`: Either "Biological", "Chemical Class", or "Chemical". - `filterBy`: Character. Either "All" or one of the filtered categories. - `manual_remove`: Vector of categories to remove. - `hit_threshold`: Numeric threshold defining a "hit". - `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. - `font_size`: Numeric to adjust the axis font size. - `title`: Character title for plot. - `x_label`: Character for x label. Default is NA which produces an automatic label. - `palette`: Vector of color palette for fill. Can be a named vector to specify specific color for specific categories. - `top_num`: Integer number of endpoints to include in the graph. If NA, all endpoints will be included. ## Details The difference between this function and the `plot_tox_endpoints` is that the `...` arguments allow for customized faceting. To include this in the original toxEval function, backward compatibility would be broken. ## Examples ```r 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) cs <- get_chemical_summary(tox_list, ACC, filtered_ep) cs$guide_side <- "A" cs2 <- cs cs2$guide_side <- "B" cs_double <- rbind(cs, cs2) plot_tox_endpoints2(cs_double, guide_side, top_num = 10 ) + ggplot2::facet_grid(. ~ guide_side, scales = "free_x") ```

plot_tox_endpoints2 function