UKBAnalytica-package	UKBAnalytica
.calculate_baseline	dot-calculate_baseline
.check_ml_package	dot-check_ml_package
.create_shap_predict_wrapper	dot-create_shap_predict_wrapper
.fit_coxnet	dot-fit_coxnet
.fit_gbm_surv	dot-fit_gbm_surv
.fit_glmnet	dot-fit_glmnet
.fit_logistic	dot-fit_logistic
.fit_nnet	dot-fit_nnet
.fit_rf	dot-fit_rf
.fit_rsf	dot-fit_rsf
.fit_svm	dot-fit_svm
.fit_xgboost	dot-fit_xgboost
.get_model_label	dot-get_model_label
.get_processor	dot-get_processor
.get_variable_mapping	dot-get_variable_mapping
.parse_formula	dot-parse_formula
.prepare_model_data	dot-prepare_model_data
.split_data	dot-split_data
aggregate_cancer_registry_earliest	aggregate_cancer_registry_earliest
aggregate_death_as_diagnosis	aggregate_death_as_diagnosis
aggregate_icd10_earliest	aggregate_icd10_earliest
aggregate_icd9_earliest	aggregate_icd9_earliest
aggregate_opcs4_earliest	aggregate_opcs4_earliest
aggregate_self_report_earliest	aggregate_self_report_earliest
assess_balance	assess_balance
build_full_cohort	build_full_cohort
build_survival_dataset	build_survival_dataset
calculate_air_pollution	calculate_air_pollution
calculate_blood_pressure	calculate_blood_pressure
calculate_diet_score	calculate_diet_score
calculate_weights	calculate_weights
classify_metabolites	classify_metabolites
coef.mediation_result	coef.mediation_result
combine_disease_definitions	combine_disease_definitions
compare_data_sources	compare_data_sources
compute_protein_ppi_metrics	compute_protein_ppi_metrics
confint.mediation_result	confint.mediation_result
create_baseline_table	create_baseline_table
create_disease_definition	create_disease_definition
create_imputation_list	create_imputation_list
create_medication_definition	create_medication_definition
estimate_propensity_score	estimate_propensity_score
extract_cases_by_source	extract_cases_by_source
extract_diabetes_subtype_baseline	extract_diabetes_subtype_baseline
extract_disease_diagnosis	extract_disease_diagnosis
extract_disease_history	extract_disease_history
extract_disease_history_sensitivity	extract_disease_history_sensitivity
extract_medications	extract_medications
extract_self_report_medications	extract_self_report_medications
filter_cancer_registry	filter_cancer_registry
filter_death_codes	filter_death_codes
filter_icd10_codes	filter_icd10_codes
filter_icd9_codes	filter_icd9_codes
filter_opcs4_codes	filter_opcs4_codes
filter_self_report_codes	filter_self_report_codes
fit_mi_models	fit_mi_models
generate_wide_format_dual_source	generate_wide_format_dual_source
get_death_dates	get_death_dates
get_disease_catalog	get_disease_catalog
get_field_info	get_field_info
get_field_metadata	get_field_metadata
get_medication_catalog	get_medication_catalog
get_pomegranate_diseases	get_pomegranate_diseases
get_pomegranate_source_manifest	get_pomegranate_source_manifest
get_predefined_diseases	get_predefined_diseases
get_predefined_medications	get_predefined_medications
get_protein_ppi	get_protein_ppi
get_ukb_demo_colnames	get_ukb_demo_colnames
get_variable_info	get_variable_info
get_variable_set	get_variable_set
get_variable_sets	get_variable_sets
load_pomegranate_portal_coding	load_pomegranate_portal_coding
load_ukb_medication_coding	load_ukb_medication_coding
load_ukb_metabolite_panel	load_ukb_metabolite_panel
match_propensity	match_propensity
metabolite_to_metaboanalyst_name	metabolite_to_metaboanalyst_name
mi_pool	mi_pool
ml_evaluate	ml_evaluate
ml_model	ml_model
ml_shap	ml_shap
ml_survival	ml_survival
parse_cancer_registry	parse_cancer_registry
parse_death_records	parse_death_records
parse_icd10_diagnoses	parse_icd10_diagnoses
parse_icd9_diagnoses	parse_icd9_diagnoses
parse_opcs4_procedures	parse_opcs4_procedures
parse_self_reported_illnesses	parse_self_reported_illnesses
plot.ukb_ml_flow	plot.ukb_ml_flow
plot.ukb_ml_flow_compare	plot.ukb_ml_flow_compare
plot.ukb_rcs	plot_rcs
plot_balance	plot_balance
plot_calibration	plot_calibration
plot_correlation	plot_correlation
plot_cox_loghr_correlation	plot_cox_loghr_correlation
plot_cox_sensitivity_correlation	plot_cox_sensitivity_correlation
plot_enrichment_lollipop	plot_enrichment_lollipop
plot_forest	plot_forest
plot_go_ora_bar	plot_go_ora_bar
plot_heatmap	plot_heatmap
plot_km_curve	plot_km_curve
plot_mediation	plot_mediation
plot_mediation_forest	plot_mediation_forest
plot_metabolite_ora_barplot	plot_metabolite_ora_barplot
plot_metabolite_ora_dotplot	plot_metabolite_ora_dotplot
plot_mi_diagnostics	plot_mi_diagnostics
plot_mi_pooled	plot_mi_pooled
plot_ml_calibration	plot_ml_calibration
plot_ml_compare	plot_ml_compare
plot_ml_confusion	plot_ml_confusion
plot_ml_dca	plot_ml_dca
plot_ml_gain	plot_ml_gain
plot_ml_importance	plot_ml_importance
plot_ml_ks	plot_ml_ks
plot_ml_lift	plot_ml_lift
plot_ml_pr	plot_ml_pr
plot_ml_roc	plot_ml_roc
plot_ml_roc_compare	plot_ml_roc_compare
plot_participant_flow	plot_participant_flow
plot_ps_distribution	plot_ps_distribution
plot_rcs	plot_rcs
plot_rcs.ukb_rcs	plot_rcs
plot_regression_volcano	plot_regression_volcano
plot_scatter	plot_scatter
plot_shap_beeswarm	plot_shap_beeswarm
plot_shap_dependence	plot_shap_dependence
plot_shap_force	plot_shap_force
plot_shap_summary	plot_shap_summary
plot_stacked_bar	plot_stacked_bar
plot_top_hr_bars	plot_top_hr_bars
plot_violin	plot_violin
pool_custom_estimates	pool_custom_estimates
pool_mi_models	pool_mi_models
preprocess_baseline	preprocess_baseline
print.mediation_result	print.mediation_result
protein_to_gene_symbol	protein_to_gene_symbol
rank_protein_ppi_nodes	rank_protein_ppi_nodes
rap_extract	rap_extract
rap_extract_pheno	rap_extract_pheno
rap_find_dataset	rap_find_dataset
rap_list_fields	rap_list_fields
rap_plan_extract	rap_plan_extract
rap_submit_extract	rap_submit_extract
regression_extensions	regression_extensions
runmulti_competing	runmulti_competing
runmulti_cox	runmulti_cox
runmulti_cox_lag	runmulti_cox_lag
runmulti_cox_zph	runmulti_cox_zph
runmulti_gam	runmulti_gam
runmulti_glm	runmulti_glm
runmulti_lm	runmulti_lm
runmulti_logit	runmulti_logit
runmulti_negbin	runmulti_negbin
runmulti_trend	runmulti_trend
run_correlation	run_correlation
run_imputation	run_imputation
run_mediation	run_mediation
run_metabolite_ora	run_metabolite_ora
run_multi_mediator	run_multi_mediator
run_multi_subgroup	run_multi_subgroup
run_protein_kegg_ora	run_protein_kegg_ora
run_protein_ora	run_protein_ora
run_protein_ppi_clustering	run_protein_ppi_clustering
run_protein_ppi_robustness	run_protein_ppi_robustness
run_rcs	run_rcs
run_regression	run_regression
run_sensitivity_mediation	run_sensitivity_mediation
run_subgroup_analysis	run_subgroup_analysis
run_weighted_analysis	run_weighted_analysis
score_protein_ppi_clusters	score_protein_ppi_clusters
select_incident_by_years	select_incident_by_years
sensitivity_exclude_early_events	sensitivity_exclude_early_events
sensitivity_exclude_missing_covariates	sensitivity_exclude_missing_covariates
subset_protein_ppi	subset_protein_ppi
summary.mediation_result	summary.mediation_result
tidy.mi_pooled_result	tidy.mi_pooled_result
UKBAnalytica	UKBAnalytica
ukb_check_rap_env	ukb_check_rap_env
ukb_clean_missing	ukb_clean_missing
ukb_compare_cox_results	ukb_compare_cox_results
ukb_compare_sensitivity_cox	ukb_compare_sensitivity_cox
ukb_cox_diagnostics	ukb_cox_diagnostics
ukb_create_extraction_manifest	ukb_create_extraction_manifest
ukb_decode	ukb_decode
ukb_decode_column_names	ukb_decode_column_names
ukb_decode_values	ukb_decode_values
ukb_demo	ukb_demo
ukb_dictionary_zh	ukb_dictionary_zh
ukb_download_rap_dictionary	ukb_download_rap_dictionary
ukb_extract_fields	ukb_extract_fields
ukb_field_info	ukb_field_info
ukb_metadata_setup	ukb_metadata_setup
ukb_ml_as_split	ukb_ml_as_split
ukb_ml_calibration	ukb_ml_calibration
ukb_ml_compare	ukb_ml_compare
ukb_ml_compare_feature_sets	ukb_ml_compare_feature_sets
ukb_ml_compare_flows	ukb_ml_compare_flows
ukb_ml_confusion	ukb_ml_confusion
ukb_ml_cv	ukb_ml_cv
ukb_ml_dca	ukb_ml_dca
ukb_ml_evaluate_test	ukb_ml_evaluate_test
ukb_ml_feature_select	ukb_ml_feature_select
ukb_ml_fit_final	ukb_ml_fit_final
ukb_ml_flow	ukb_ml_flow
ukb_ml_gain_lift	ukb_ml_gain_lift
ukb_ml_importance	ukb_ml_importance
ukb_ml_ks	ukb_ml_ks
ukb_ml_metrics	ukb_ml_metrics
ukb_ml_model	ukb_ml_model
ukb_ml_pr	ukb_ml_pr
ukb_ml_predict	ukb_ml_predict
ukb_ml_roc	ukb_ml_roc
ukb_ml_roc_data	ukb_ml_roc_data
ukb_ml_split_data	ukb_ml_split_data
ukb_ml_supported_models	ukb_ml_supported_models
ukb_ml_survival	ukb_ml_survival
ukb_ml_survival_as_split	ukb_ml_survival_as_split
ukb_ml_survival_evaluate_test	ukb_ml_survival_evaluate_test
ukb_ml_survival_feature_select	ukb_ml_survival_feature_select
ukb_ml_survival_fit_final	ukb_ml_survival_fit_final
ukb_ml_survival_importance	ukb_ml_survival_importance
ukb_ml_survival_predict	ukb_ml_survival_predict
ukb_ml_survival_shap	ukb_ml_survival_shap
ukb_ml_survival_split_data	ukb_ml_survival_split_data
ukb_ml_survival_tune	ukb_ml_survival_tune
ukb_ml_survival_workflow	ukb_ml_survival_workflow
ukb_ml_threshold	ukb_ml_threshold
ukb_ml_tune	ukb_ml_tune
ukb_ml_workflow	ukb_ml_workflow
ukb_participant_flow	ukb_participant_flow
ukb_protein_annotation	ukb_protein_annotation
ukb_query_dictionary	ukb_query_dictionary
ukb_scale_with_parameters	ukb_scale_with_parameters
ukb_search_fields	ukb_search_fields
ukb_sensitivity_suite	ukb_sensitivity_suite
ukb_shap	ukb_shap
ukb_shap_dependence	ukb_shap_dependence
ukb_shap_force	ukb_shap_force
ukb_shap_summary	ukb_shap_summary
ukb_snapshot	ukb_snapshot
ukb_standardize_by_train	ukb_standardize_by_train
ukb_time_skeleton	ukb_time_skeleton
ukb_top_hr_results	ukb_top_hr_results
ukb_train_validation_cox	ukb_train_validation_cox
ukb_validate_columns	ukb_validate_columns
ukb_write_extraction_manifest	ukb_write_extraction_manifest
variable_preprocess	variable_preprocess
