# Generated by roxygen2: do not edit by hand

S3method(coef,mediation_result)
S3method(coef,mi_pooled_result)
S3method(confint,mediation_result)
S3method(confint,mi_pooled_result)
S3method(plot,ukb_ml_flow)
S3method(plot,ukb_ml_flow_compare)
S3method(plot,ukb_rcs)
S3method(plot_rcs,ukb_rcs)
S3method(predict,ukb_ml)
S3method(predict,ukb_ml_final)
S3method(predict,ukb_ml_surv)
S3method(predict,ukb_ml_survival_final)
S3method(predict,ukb_ml_survival_workflow)
S3method(print,mediation_result)
S3method(print,mi_pooled_result)
S3method(print,ukb_dictionary_query)
S3method(print,ukb_extraction_manifest)
S3method(print,ukb_field_info)
S3method(print,ukb_metadata)
S3method(print,ukb_ml)
S3method(print,ukb_ml_calibration)
S3method(print,ukb_ml_compare)
S3method(print,ukb_ml_confusion)
S3method(print,ukb_ml_cv)
S3method(print,ukb_ml_dca)
S3method(print,ukb_ml_flow)
S3method(print,ukb_ml_gain_lift)
S3method(print,ukb_ml_ks)
S3method(print,ukb_ml_pr)
S3method(print,ukb_ml_roc)
S3method(print,ukb_ml_split)
S3method(print,ukb_ml_surv)
S3method(print,ukb_ml_survival_split)
S3method(print,ukb_ml_survival_workflow)
S3method(print,ukb_ml_workflow)
S3method(print,ukb_rap_env)
S3method(print,ukb_sensitivity_suite)
S3method(print,ukb_shap)
S3method(summary,mediation_result)
S3method(summary,mi_pooled_result)
S3method(summary,ukb_ml)
S3method(summary,ukb_ml_surv)
S3method(summary,ukb_shap)
S3method(ukb_ml_predict,ukb_ml)
S3method(vcov,mi_pooled_result)
export(assess_balance)
export(build_survival_dataset)
export(calculate_air_pollution)
export(calculate_blood_pressure)
export(calculate_diet_score)
export(calculate_weights)
export(classify_metabolites)
export(combine_disease_definitions)
export(compare_data_sources)
export(compute_protein_ppi_metrics)
export(create_baseline_table)
export(create_disease_definition)
export(create_imputation_list)
export(create_medication_definition)
export(estimate_propensity_score)
export(extract_cases_by_source)
export(extract_diabetes_subtype_baseline)
export(extract_disease_diagnosis)
export(extract_disease_history)
export(extract_disease_history_sensitivity)
export(extract_medications)
export(extract_self_report_medications)
export(fit_mi_models)
export(get_death_dates)
export(get_disease_catalog)
export(get_field_info)
export(get_field_metadata)
export(get_medication_catalog)
export(get_pomegranate_diseases)
export(get_pomegranate_source_manifest)
export(get_predefined_diseases)
export(get_predefined_medications)
export(get_protein_ppi)
export(get_ukb_demo_colnames)
export(get_variable_info)
export(get_variable_set)
export(get_variable_sets)
export(load_pomegranate_portal_coding)
export(load_ukb_medication_coding)
export(load_ukb_metabolite_panel)
export(match_propensity)
export(metabolite_to_metaboanalyst_name)
export(parse_cancer_registry)
export(parse_death_records)
export(parse_icd10_diagnoses)
export(parse_icd9_diagnoses)
export(parse_opcs4_procedures)
export(parse_self_reported_illnesses)
export(plot_balance)
export(plot_calibration)
export(plot_correlation)
export(plot_cox_loghr_correlation)
export(plot_cox_sensitivity_correlation)
export(plot_enrichment_lollipop)
export(plot_forest)
export(plot_go_ora_bar)
export(plot_heatmap)
export(plot_km_curve)
export(plot_mediation)
export(plot_mediation_forest)
export(plot_metabolite_ora_barplot)
export(plot_metabolite_ora_dotplot)
export(plot_mi_diagnostics)
export(plot_mi_pooled)
export(plot_ml_calibration)
export(plot_ml_compare)
export(plot_ml_confusion)
export(plot_ml_dca)
export(plot_ml_gain)
export(plot_ml_importance)
export(plot_ml_ks)
export(plot_ml_lift)
export(plot_ml_pr)
export(plot_ml_roc)
export(plot_ml_roc_compare)
export(plot_participant_flow)
export(plot_ps_distribution)
export(plot_rcs)
export(plot_regression_volcano)
export(plot_scatter)
export(plot_shap_beeswarm)
export(plot_shap_dependence)
export(plot_shap_force)
export(plot_shap_summary)
export(plot_stacked_bar)
export(plot_top_hr_bars)
export(plot_violin)
export(pool_custom_estimates)
export(pool_mi_models)
export(preprocess_baseline)
export(protein_to_gene_symbol)
export(rank_protein_ppi_nodes)
export(rap_extract_pheno)
export(rap_find_dataset)
export(rap_list_fields)
export(rap_plan_extract)
export(rap_submit_extract)
export(run_correlation)
export(run_imputation)
export(run_mediation)
export(run_metabolite_ora)
export(run_multi_mediator)
export(run_multi_subgroup)
export(run_protein_kegg_ora)
export(run_protein_ora)
export(run_protein_ppi_clustering)
export(run_protein_ppi_robustness)
export(run_rcs)
export(run_regression)
export(run_sensitivity_mediation)
export(run_subgroup_analysis)
export(run_weighted_analysis)
export(runmulti_competing)
export(runmulti_cox)
export(runmulti_cox_lag)
export(runmulti_cox_zph)
export(runmulti_gam)
export(runmulti_glm)
export(runmulti_lm)
export(runmulti_logit)
export(runmulti_negbin)
export(runmulti_trend)
export(score_protein_ppi_clusters)
export(select_incident_by_years)
export(sensitivity_exclude_early_events)
export(sensitivity_exclude_missing_covariates)
export(subset_protein_ppi)
export(tidy.mi_pooled_result)
export(ukb_check_rap_env)
export(ukb_clean_missing)
export(ukb_compare_cox_results)
export(ukb_compare_sensitivity_cox)
export(ukb_cox_diagnostics)
export(ukb_create_extraction_manifest)
export(ukb_decode)
export(ukb_decode_column_names)
export(ukb_decode_values)
export(ukb_demo)
export(ukb_download_rap_dictionary)
export(ukb_extract_fields)
export(ukb_field_info)
export(ukb_metadata_setup)
export(ukb_ml_as_split)
export(ukb_ml_calibration)
export(ukb_ml_compare)
export(ukb_ml_compare_feature_sets)
export(ukb_ml_compare_flows)
export(ukb_ml_confusion)
export(ukb_ml_cv)
export(ukb_ml_dca)
export(ukb_ml_evaluate_test)
export(ukb_ml_feature_select)
export(ukb_ml_fit_final)
export(ukb_ml_flow)
export(ukb_ml_gain_lift)
export(ukb_ml_importance)
export(ukb_ml_ks)
export(ukb_ml_metrics)
export(ukb_ml_model)
export(ukb_ml_pr)
export(ukb_ml_predict)
export(ukb_ml_roc)
export(ukb_ml_roc_data)
export(ukb_ml_split_data)
export(ukb_ml_supported_models)
export(ukb_ml_survival)
export(ukb_ml_survival_as_split)
export(ukb_ml_survival_evaluate_test)
export(ukb_ml_survival_feature_select)
export(ukb_ml_survival_fit_final)
export(ukb_ml_survival_importance)
export(ukb_ml_survival_predict)
export(ukb_ml_survival_shap)
export(ukb_ml_survival_split_data)
export(ukb_ml_survival_tune)
export(ukb_ml_survival_workflow)
export(ukb_ml_threshold)
export(ukb_ml_tune)
export(ukb_ml_workflow)
export(ukb_participant_flow)
export(ukb_protein_annotation)
export(ukb_query_dictionary)
export(ukb_scale_with_parameters)
export(ukb_search_fields)
export(ukb_sensitivity_suite)
export(ukb_shap)
export(ukb_shap_dependence)
export(ukb_shap_force)
export(ukb_shap_summary)
export(ukb_snapshot)
export(ukb_standardize_by_train)
export(ukb_time_skeleton)
export(ukb_top_hr_results)
export(ukb_train_validation_cox)
export(ukb_validate_columns)
export(ukb_write_extraction_manifest)
import(data.table)
importFrom(MASS,glm.nb)
importFrom(data.table,":=")
importFrom(data.table,as.data.table)
importFrom(data.table,copy)
importFrom(data.table,data.table)
importFrom(data.table,fifelse)
importFrom(data.table,is.data.table)
importFrom(ggplot2,aes)
importFrom(ggplot2,annotate)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,coord_equal)
importFrom(ggplot2,coord_fixed)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_text)
importFrom(ggplot2,expansion)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_abline)
importFrom(ggplot2,geom_boxplot)
importFrom(ggplot2,geom_col)
importFrom(ggplot2,geom_density)
importFrom(ggplot2,geom_errorbar)
importFrom(ggplot2,geom_errorbarh)
importFrom(ggplot2,geom_histogram)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_jitter)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_rect)
importFrom(ggplot2,geom_ribbon)
importFrom(ggplot2,geom_rug)
importFrom(ggplot2,geom_segment)
importFrom(ggplot2,geom_smooth)
importFrom(ggplot2,geom_step)
importFrom(ggplot2,geom_text)
importFrom(ggplot2,geom_tile)
importFrom(ggplot2,geom_violin)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,guide_colorbar)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,margin)
importFrom(ggplot2,position_jitter)
importFrom(ggplot2,position_stack)
importFrom(ggplot2,scale_color_gradientn)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_color_viridis_c)
importFrom(ggplot2,scale_colour_manual)
importFrom(ggplot2,scale_fill_gradient)
importFrom(ggplot2,scale_fill_gradient2)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_linetype_manual)
importFrom(ggplot2,scale_size_continuous)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,scale_x_log10)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,scale_y_discrete)
importFrom(ggplot2,sec_axis)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_classic)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,theme_void)
importFrom(ggplot2,vars)
importFrom(grid,unit)
importFrom(igraph,as_undirected)
importFrom(igraph,cluster_fast_greedy)
importFrom(igraph,components)
importFrom(igraph,cut_at)
importFrom(igraph,ecount)
importFrom(igraph,induced_subgraph)
importFrom(igraph,set_vertex_attr)
importFrom(igraph,simplify)
importFrom(igraph,vcount)
importFrom(igraph,vertex_attr)
importFrom(lmtest,coeftest)
importFrom(mice,complete)
importFrom(mice,mice)
importFrom(mitools,MIcombine)
importFrom(mitools,MIextract)
importFrom(mitools,imputationList)
importFrom(pROC,auc)
importFrom(pROC,ci.auc)
importFrom(pROC,roc)
importFrom(rlang,.data)
importFrom(sandwich,vcovHC)
importFrom(splines,ns)
importFrom(stats,AIC)
importFrom(stats,anova)
importFrom(stats,approx)
importFrom(stats,as.formula)
importFrom(stats,ave)
importFrom(stats,binom.test)
importFrom(stats,binomial)
importFrom(stats,coef)
importFrom(stats,complete.cases)
importFrom(stats,confint)
importFrom(stats,cor)
importFrom(stats,cor.test)
importFrom(stats,delete.response)
importFrom(stats,glm)
importFrom(stats,lm)
importFrom(stats,model.frame)
importFrom(stats,model.matrix)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,predict)
importFrom(stats,qnorm)
importFrom(stats,quantile)
importFrom(stats,relevel)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stats,terms)
importFrom(stats,var)
importFrom(stats,vcov)
importFrom(stats,weighted.mean)
importFrom(stringi,stri_extract_all_regex)
importFrom(stringi,stri_trim_both)
importFrom(survival,Surv)
importFrom(survival,basehaz)
importFrom(survival,concordance)
importFrom(survival,cox.zph)
importFrom(survival,coxph)
importFrom(survival,finegray)
importFrom(survival,survdiff)
importFrom(survival,survfit)
importFrom(tableone,CreateTableOne)
importFrom(utils,head)
importFrom(utils,modifyList)
importFrom(xml2,read_html)
importFrom(xml2,xml_find_all)
importFrom(xml2,xml_text)
