Man pages for AutoScore
An Interpretable Machine Learning-Based Automatic Clinical Score Generator
| add_baseline | Internal Function: Add baselines after second-step logistic... |
| assign_score | Internal Function: Automatically assign scores to each... |
| AutoScore_fine_tuning | AutoScore STEP(iv): Fine-tune the score by revising cut_vec... |
| AutoScore_fine_tuning_Ordinal | AutoScore STEP(iv) for ordinal outcomes: Fine-tune the score... |
| AutoScore_fine_tuning_Survival | AutoScore STEP(iv) for survival outcomes: Fine-tune the score... |
| AutoScore_parsimony | AutoScore STEP(ii): Select the best model with parsimony plot... |
| AutoScore_parsimony_Ordinal | AutoScore STEP(ii) for ordinal outcomes: Select the best... |
| AutoScore_parsimony_Survival | AutoScore STEP(ii) for survival outcomes: Select the best... |
| AutoScore_rank | AutoScore STEP(i): Rank variables with machine learning... |
| AutoScore_rank_Ordinal | AutoScore STEP (i) for ordinal outcomes: Generate variable... |
| AutoScore_rank_Survival | AutoScore STEP (1) for survival outcomes: Generate variable... |
| AutoScore_testing | AutoScore STEP(v): Evaluate the final score with ROC analysis... |
| AutoScore_testing_Ordinal | AutoScore STEP(v) for ordinal outcomes: Evaluate the final... |
| AutoScore_testing_Survival | AutoScore STEP(v) for survival outcomes: Evaluate the final... |
| AutoScore_weighting | AutoScore STEP(iii): Generate the initial score with the... |
| AutoScore_weighting_Ordinal | AutoScore STEP(iii) for ordinal outcomes: Generate the... |
| AutoScore_weighting_Survival | AutoScore STEP(iii) for survival outcomes: Generate the... |
| change_reference | Internal Function: Change Reference category after first-step... |
| check_data | AutoScore function for datasets with binary outcomes: Check... |
| check_data_ordinal | AutoScore function for ordinal outcomes: Check whether the... |
| check_data_survival | AutoScore function for survival data: Check whether the input... |
| check_link | Internal function: Check link function |
| check_predictor | Internal function: Check predictors |
| compute_auc_val | Internal function: Compute AUC based on validation set for... |
| compute_auc_val_ord | Internal function: Compute mean AUC for ordinal outcomes... |
| compute_auc_val_survival | Internal function for survival outcomes: Compute AUC based on... |
| compute_descriptive_table | AutoScore function: Descriptive Analysis |
| compute_final_score_ord | Internal function: Compute risk scores for ordinal data given... |
| compute_mauc_ord | Internal function: Compute mAUC for ordinal predictions |
| compute_multi_variable_table | AutoScore function: Multivariate Analysis |
| compute_multi_variable_table_ordinal | AutoScore-Ordinal function: Multivariate Analysis |
| compute_multi_variable_table_survival | AutoScore function for survival outcomes: Multivariate... |
| compute_prob_observed | Internal function: Based on given labels and scores, compute... |
| compute_prob_predicted | Internal function: Based on given labels and scores, compute... |
| compute_score_table | Internal function: Compute scoring table based on training... |
| compute_score_table_ord | Internal function: Compute scoring table for ordinal outcomes... |
| compute_score_table_survival | Internal function: Compute scoring table for survival... |
| compute_uni_variable_table | AutoScore function: Univariable Analysis |
| compute_uni_variable_table_ordinal | AutoScore-Ordinal function: Univariable Analysis |
| compute_uni_variable_table_survival | AutoScore function for survival outcomes: Univariate Analysis |
| conversion_table | AutoScore function: Print conversion table based on final... |
| conversion_table_ordinal | AutoScore function: Print conversion table for ordinal... |
| conversion_table_survival | AutoScore function for survival outcomes: Print conversion... |
| estimate_p_mat | Internal function: generate probability matrix for ordinal... |
| evaluate_model_ord | Internal function: Evaluate model performance on ordinal data |
| eva_performance_iauc | Internal function survival outcome: Calculate iAUC for... |
| extract_or_ci_ord | Extract OR, CI and p-value from a proportional odds model |
| find_one_inds | Internal function: Find column indices in design matrix that... |
| find_possible_scores | Internal function: Compute all scores attainable. |
| get_cut_vec | Internal function: Calculate cut_vec from the training set... |
| group_score | Internal function: Group scores based on given score breaks,... |
| induce_informative_missing | Internal function: induce informative missing to sample data... |
| induce_median_missing | Internal function: induce informative missing in a single... |
| inv_cloglog | Internal function: Inverse cloglog link |
| inv_logit | Internal function: Inverse logit link |
| inv_probit | Internal function: Inverse probit link |
| make_design_mat | Internal function: Based on 'find_one_inds', make a design... |
| plot_auc | Internal function: Make parsimony plot |
| plot_importance | Internal Function: Print plotted variable importance |
| plot_predicted_risk | AutoScore function for binary and ordinal outcomes: Plot... |
| plot_roc_curve | Internal Function: Plotting ROC curve |
| plot_survival_km | AutoScore function for survival outcomes: Print scoring... |
| print_performance_ci_survival | AutoScore function for survival outcomes: Print predictive... |
| print_performance_ordinal | AutoScore function for ordinal outcomes: Print predictive... |
| print_performance_survival | AutoScore function for survival outcomes: Print predictive... |
| print_roc_performance | AutoScore function: Print receiver operating characteristic... |
| print_scoring_table | AutoScore Function: Print scoring tables for visualization |
| sample_data | 20000 simulated ICU admission data, with the same... |
| sample_data_ordinal | Simulated ED data with ordinal outcome |
| sample_data_ordinal_small | Simulated ED data with ordinal outcome (small sample size) |
| sample_data_small | 1000 simulated ICU admission data, with the same distribution... |
| sample_data_survival | 20000 simulated MIMIC sample data with survival outcomes |
| sample_data_survival_small | 1000 simulated MIMIC sample data with survival outcomes |
| sample_data_with_missing | 20000 simulated ICU admission data with missing values |
| split_data | AutoScore Function: Automatically splitting dataset to train,... |
| transform_df_fixed | Internal function: Categorizing continuous variables based on... |
