Costs function for poor classification
classification_cost() calculates the cost of a poor prediction based on user-defined costs. The costs are multiplied by the estimated class probabilities and the mean cost is returned.
classification_cost(data, ...) ## S3 method for class 'data.frame' classification_cost( data, truth, ..., costs = NULL, na_rm = TRUE, event_level = yardstick_event_level(), case_weights = NULL ) classification_cost_vec( truth, estimate, costs = NULL, na_rm = TRUE, event_level = yardstick_event_level(), case_weights = NULL, ... )
data: A data.frame containing the columns specified by truth and ....
...: A set of unquoted column names or one or more dplyr selector functions to choose which variables contain the class probabilities. If truth is binary, only 1 column should be selected, and it should correspond to the value of event_level. Otherwise, there should be as many columns as factor levels of truth and the ordering of the columns should be the same as the factor levels of truth.
truth: The column identifier for the true class results (that is a factor). This should be an unquoted column name although this argument is passed by expression and supports quasiquotation (you can unquote column names). For _vec() functions, a factor vector.
costs: A data frame with columns "truth", "estimate", and "cost".
"truth" and "estimate" should be character columns containing unique combinations of the levels of the truth factor.
"costs" should be a numeric column representing the cost that should be applied when the "estimate" is predicted, but the true result is "truth".
It is often the case that when "truth" == "estimate", the cost is zero (no penalty for correct predictions).
If any combinations of the levels of truth are missing, their costs are assumed to be zero.
If NULL, equal costs are used, applying a cost of 0 to correct predictions, and a cost of 1 to incorrect predictions.
na_rm: A logical value indicating whether NA
values should be stripped before the computation proceeds.
event_level: A single string. Either "first" or "second" to specify which level of truth to consider as the "event". This argument is only applicable when estimator = "binary". The default uses an internal helper that defaults to "first".
case_weights: The optional column identifier for case weights. This should be an unquoted column name that evaluates to a numeric column in data. For _vec() functions, a numeric vector, hardhat::importance_weights(), or hardhat::frequency_weights().
estimate: If truth is binary, a numeric vector of class probabilities corresponding to the "relevant" class. Otherwise, a matrix with as many columns as factor levels of truth. It is assumed that these are in the same order as the levels of truth.
A tibble with columns .metric, .estimator, and .estimate and 1 row of values.
For grouped data frames, the number of rows returned will be the same as the number of groups.
For class_cost_vec(), a single numeric value (or NA).
As an example, suppose that there are three classes: "A", "B", and "C". Suppose there is a truly "A" observation with class probabilities A = 0.3 / B = 0.3 / C = 0.4. Suppose that, when the true result is class "A", the costs for each class were A = 0 / B = 5 / C = 10, penalizing the probability of incorrectly predicting "C" more than predicting "B". The cost for this prediction would be 0.3 * 0 + 0.3 * 5 + 0.4 * 10. This calculation is done for each sample and the individual costs are averaged.
library(dplyr) # --------------------------------------------------------------------------- # Two class example data(two_class_example) # Assuming `Class1` is our "event", this penalizes false positives heavily costs1 <- tribble( ~truth, ~estimate, ~cost, "Class1", "Class2", 1, "Class2", "Class1", 2 ) # Assuming `Class1` is our "event", this penalizes false negatives heavily costs2 <- tribble( ~truth, ~estimate, ~cost, "Class1", "Class2", 2, "Class2", "Class1", 1 ) classification_cost(two_class_example, truth, Class1, costs = costs1) classification_cost(two_class_example, truth, Class1, costs = costs2) # --------------------------------------------------------------------------- # Multiclass data(hpc_cv) # Define cost matrix from Kuhn and Johnson (2013) hpc_costs <- tribble( ~estimate, ~truth, ~cost, "VF", "VF", 0, "VF", "F", 1, "VF", "M", 5, "VF", "L", 10, "F", "VF", 1, "F", "F", 0, "F", "M", 5, "F", "L", 5, "M", "VF", 1, "M", "F", 1, "M", "M", 0, "M", "L", 1, "L", "VF", 1, "L", "F", 1, "L", "M", 1, "L", "L", 0 ) # You can use the col1:colN tidyselect syntax hpc_cv %>% filter(Resample == "Fold01") %>% classification_cost(obs, VF:L, costs = hpc_costs) # Groups are respected hpc_cv %>% group_by(Resample) %>% classification_cost(obs, VF:L, costs = hpc_costs)
Other class probability metrics: average_precision(), brier_class(), gain_capture(), mn_log_loss(), pr_auc(), roc_auc(), roc_aunp(), roc_aunu()
Max Kuhn
Useful links