Index

A

append_filename() (in module memilio.epidata.getDataIntoPandasDataFrame)

assign_geographical_entities() (in module memilio.epidata.getCommuterMobility) assign_population_data() (in module memilio.epidata.getPopulationData)

C

calc_dist_days() (in module memilio.surrogatemodel.utils.dampings) calc_factors_active() (in module memilio.surrogatemodel.utils.dampings) calc_split_index() (in module memilio.surrogatemodel.utils.helper_functions) check_dir() (in module memilio.epidata.getDataIntoPandasDataFrame) check_for_all_counties() (in module memilio.epidata.geoModificationGermany) check_for_completeness() (in module memilio.epidata.getCaseData) clean_data() (in module memilio.epidata.cleanData) cli() (in module memilio.epidata.cleanData) (in module memilio.epidata.getDataIntoPandasDataFrame) cnn_multi_input_multi_output() (in module memilio.surrogatemodel.ode_secir_groups.network_architectures) (in module memilio.surrogatemodel.ode_secir_simple.network_architectures)

commuter_sanity_checks() (in module memilio.epidata.getCommuterMobility) compute_vaccination_ratios() (in module memilio.epidata.getVaccinationData) Conf (class in memilio.epidata.getDataIntoPandasDataFrame) create_gif_map_plot() (in module memilio.plot.createGIF) create_intermediateregion_level() (in module memilio.epidata.geoModificationGermany) create_intervals_mapping() (in module memilio.epidata.modifyDataframeSeries) create_plot_map() (in module memilio.plot.createGIF) createFederalStatesMobility() (in module memilio.epidata.transformMobilityData) Critical (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute)

D

dampings_active() (in module memilio.surrogatemodel.utils.dampings) dampings_classic() (in module memilio.surrogatemodel.utils.dampings) dampings_random() (in module memilio.surrogatemodel.utils.dampings) DataError Debug (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute) default_print() (in module memilio.epidata.getDataIntoPandasDataFrame)

disable_indicators() (memilio.epidata.progress_indicator.ProgressIndicator static method) divi_data_sanity_checks() (in module memilio.epidata.getDIVIData) Dots (class in memilio.epidata.progress_indicator) download_file() (in module memilio.epidata.getDataIntoPandasDataFrame) download_testing_data() (in module memilio.epidata.getTestingData) download_vaccination_data() (in module memilio.epidata.getVaccinationData)

E

Error (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute) excel_engine (memilio.epidata.getDataIntoPandasDataFrame.Conf attribute) export_population_dataframe() (in module memilio.epidata.getPopulationData) extract_data() (in module memilio.plot.plotMap)

extract_subframe_based_on_dates() (in module memilio.epidata.modifyDataframeSeries) extract_time_steps() (in module memilio.plot.plotMap) extract_zip() (in module memilio.epidata.getDataIntoPandasDataFrame) extrapolate_age_groups_vaccinations() (in module memilio.epidata.getVaccinationData)

F

fetch_case_data() (in module memilio.epidata.getCaseData) fetch_divi_data() (in module memilio.epidata.getDIVIData) fetch_population_data() (in module memilio.epidata.getPopulationData)

fetch_vaccination_data() (in module memilio.epidata.getVaccinationData) fit_age_group_intervals() (in module memilio.epidata.modifyDataframeSeries) flat_input() (in module memilio.surrogatemodel.utils.helper_functions)

G

generate_dampings() (in module memilio.surrogatemodel.utils.dampings) generate_dampings_withshadowdamp() (in module memilio.surrogatemodel.utils.dampings) get_case_data() (in module memilio.epidata.getCaseData) get_commuter_data() (in module memilio.epidata.getCommuterMobility) get_county_ids() (in module memilio.epidata.geoModificationGermany) get_county_names() (in module memilio.epidata.geoModificationGermany) get_county_names_and_ids() (in module memilio.epidata.geoModificationGermany) get_countyid_to_intermediateregionid_map() (in module memilio.epidata.geoModificationGermany) get_countyid_to_name() (in module memilio.epidata.geoModificationGermany) get_countyid_to_stateid_map() (in module memilio.epidata.geoModificationGermany) get_divi_data() (in module memilio.epidata.getDIVIData) get_file() (in module memilio.epidata.getDataIntoPandasDataFrame) get_governing_regions() (in module memilio.epidata.geoModificationGermany) get_hospitailzations_per_day() (in module memilio.epidata.getHospitalizationData) get_hospitalization_data() (in module memilio.epidata.getHospitalizationData) get_intermediateregion_ids() (in module memilio.epidata.geoModificationGermany) get_intermediateregion_names() (in module memilio.epidata.geoModificationGermany) get_intermediateregion_names_and_ids() (in module memilio.epidata.geoModificationGermany)

get_intermediateregion_to_name() (in module memilio.epidata.geoModificationGermany) get_intermediateregionid_to_countyids_map() (in module memilio.epidata.geoModificationGermany) get_jh_data() (in module memilio.epidata.getJHData) get_neighbors_mobility() (in module memilio.epidata.getCommuterMobility) get_neighbors_mobility_all() (in module memilio.epidata.getCommuterMobility) get_nuts3_county_id_map() (in module memilio.epidata.geoModificationGermany) get_official_county_table() (in module memilio.epidata.geoModificationGermany) get_population_data() (in module memilio.epidata.getPopulationData) get_simulation_data() (in module memilio.epidata.getSimulationData) get_state_ids() (in module memilio.epidata.geoModificationGermany) get_state_names() (in module memilio.epidata.geoModificationGermany) get_state_names_and_ids() (in module memilio.epidata.geoModificationGermany) get_stateid_to_countyids_map() (in module memilio.epidata.geoModificationGermany) get_stateid_to_name() (in module memilio.epidata.geoModificationGermany) get_test_statistic() (in module memilio.surrogatemodel.ode_secir_groups.model) (in module memilio.surrogatemodel.ode_secir_simple.model) get_testing_data() (in module memilio.epidata.getTestingData) get_vaccination_data() (in module memilio.epidata.getVaccinationData) getMobilityFromFile() (in module memilio.epidata.transformMobilityData)

H

hospit_sanity_checks() (in module memilio.epidata.getHospitalizationData)

I

impute_and_reduce_df() (in module memilio.epidata.modifyDataframeSeries) Info (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute) initialize_model() (in module memilio.surrogatemodel.ode_secir_groups.model) (in module memilio.surrogatemodel.ode_secir_simple.model)

insert_column_by_map() (in module memilio.epidata.modifyDataframeSeries) insert_names_of_counties() (in module memilio.epidata.geoModificationGermany) insert_names_of_states() (in module memilio.epidata.geoModificationGermany) interpolate_age_groups() (in module memilio.surrogatemodel.utils.helper_functions) invert_dict() (in module memilio.epidata.defaultDict)

L

list_available_contact_countries() (in module memilio.epidata.getContactData) load_contact_matrix() (in module memilio.epidata.getContactData)

lstm_multi_input_multi_output() (in module memilio.surrogatemodel.ode_secir_groups.network_architectures) (in module memilio.surrogatemodel.ode_secir_simple.network_architectures) lstm_network_multi_input_single_output() (in module memilio.surrogatemodel.ode_secir_simple.network_architectures)

M

main() (in module memilio.epidata.cleanData) (in module memilio.epidata.getCaseData) (in module memilio.epidata.getCommuterMobility) (in module memilio.epidata.getDIVIData) (in module memilio.epidata.getHospitalizationData) (in module memilio.epidata.getJHData) (in module memilio.epidata.getPopulationData) (in module memilio.epidata.getSimulationData) (in module memilio.epidata.getTestingData) (in module memilio.epidata.getVaccinationData) (in module memilio.epidata.transformMobilityData) (in module memilio.epidata.transformWeatherData) memilio.epidata module memilio.epidata.cleanData module memilio.epidata.customPlot module memilio.epidata.defaultDict module memilio.epidata.geoModificationGermany module memilio.epidata.getCaseData module memilio.epidata.getCommuterMobility module memilio.epidata.getContactData module memilio.epidata.getDataIntoPandasDataFrame module memilio.epidata.getDIVIData module memilio.epidata.getHospitalizationData module memilio.epidata.getJHData module memilio.epidata.getPopulationData module memilio.epidata.getSimulationData module memilio.epidata.getTestingData module memilio.epidata.getVaccinationData module memilio.epidata.modifyDataframeSeries module memilio.epidata.progress_indicator module memilio.epidata.transformMobilityData module memilio.epidata.transformWeatherData module memilio.generation module memilio.plot module memilio.plot.createGIF module memilio.plot.plotMap module memilio.simulation module memilio.surrogatemodel module

memilio.surrogatemodel.GNN module memilio.surrogatemodel.ode_secir_groups module memilio.surrogatemodel.ode_secir_groups.model module memilio.surrogatemodel.ode_secir_groups.network_architectures module memilio.surrogatemodel.ode_secir_simple module memilio.surrogatemodel.ode_secir_simple.model module memilio.surrogatemodel.ode_secir_simple.network_architectures module memilio.surrogatemodel.utils module memilio.surrogatemodel.utils.dampings module memilio.surrogatemodel.utils.helper_functions module merge_df_counties() (in module memilio.epidata.geoModificationGermany) merge_df_counties_all() (in module memilio.epidata.geoModificationGermany) merge_eisenach() (in module memilio.plot.plotMap) mlp_multi_input_multi_output() (in module memilio.surrogatemodel.ode_secir_groups.network_architectures) (in module memilio.surrogatemodel.ode_secir_simple.network_architectures) mlp_multi_input_single_output() (in module memilio.surrogatemodel.ode_secir_groups.network_architectures) (in module memilio.surrogatemodel.ode_secir_simple.network_architectures) module memilio.epidata memilio.epidata.cleanData memilio.epidata.customPlot memilio.epidata.defaultDict memilio.epidata.geoModificationGermany memilio.epidata.getCaseData memilio.epidata.getCommuterMobility memilio.epidata.getContactData memilio.epidata.getDataIntoPandasDataFrame memilio.epidata.getDIVIData memilio.epidata.getHospitalizationData memilio.epidata.getJHData memilio.epidata.getPopulationData memilio.epidata.getSimulationData memilio.epidata.getTestingData memilio.epidata.getVaccinationData memilio.epidata.modifyDataframeSeries memilio.epidata.progress_indicator memilio.epidata.transformMobilityData memilio.epidata.transformWeatherData memilio.generation memilio.plot memilio.plot.createGIF memilio.plot.plotMap memilio.simulation memilio.surrogatemodel memilio.surrogatemodel.GNN memilio.surrogatemodel.ode_secir_groups memilio.surrogatemodel.ode_secir_groups.model memilio.surrogatemodel.ode_secir_groups.network_architectures memilio.surrogatemodel.ode_secir_simple memilio.surrogatemodel.ode_secir_simple.model memilio.surrogatemodel.ode_secir_simple.network_architectures memilio.surrogatemodel.utils memilio.surrogatemodel.utils.dampings memilio.surrogatemodel.utils.helper_functions

N

network_fit() (in module memilio.surrogatemodel.ode_secir_groups.model) (in module memilio.surrogatemodel.ode_secir_simple.model)

normalize_simulation_data() (in module memilio.surrogatemodel.utils.helper_functions)

O

Off (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute)

P

Percentage (class in memilio.epidata.progress_indicator) plot_compartment_prediction_model() (in module memilio.surrogatemodel.ode_secir_groups.model) (in module memilio.surrogatemodel.ode_secir_simple.model) plot_losses() (in module memilio.surrogatemodel.ode_secir_groups.model) (in module memilio.surrogatemodel.ode_secir_simple.model) plot_map() (in module memilio.plot.plotMap) plot_multiple_series() (in module memilio.epidata.customPlot) prepare_data_classic() (in module memilio.surrogatemodel.ode_secir_groups.model)

prepare_data_timeseries() (in module memilio.surrogatemodel.ode_secir_groups.model) preprocess_case_data() (in module memilio.epidata.getCaseData) preprocess_divi_data() (in module memilio.epidata.getDIVIData) preprocess_population_data() (in module memilio.epidata.getPopulationData) print_error() (in module memilio.epidata.getSimulationData) print_manual_download() (in module memilio.plot.plotMap) process_vaccination_data() (in module memilio.epidata.getVaccinationData) prod_time_series() (in module memilio.surrogatemodel.ode_secir_groups.model) ProgressIndicator (class in memilio.epidata.progress_indicator)

R

read_population_data() (in module memilio.epidata.getPopulationData)

remove_confirmed_compartments() (in module memilio.surrogatemodel.utils.helper_functions)

S

sanitizing_average_regions() (in module memilio.epidata.getVaccinationData) sanitizing_extrapolation_mobility() (in module memilio.epidata.getVaccinationData) sanity_checks() (in module memilio.epidata.getVaccinationData) save_interactive() (in module memilio.plot.plotMap) scale_dataframe_relative() (in module memilio.plot.plotMap) set_message() (memilio.epidata.progress_indicator.ProgressIndicator method) set_progress() (memilio.epidata.progress_indicator.Percentage method) show() (memilio.epidata.progress_indicator.ProgressIndicator method)

show_progr (memilio.epidata.getDataIntoPandasDataFrame.Conf attribute) Spinner (class in memilio.epidata.progress_indicator) split_column_based_on_values() (in module memilio.epidata.modifyDataframeSeries) split_data() (in module memilio.surrogatemodel.ode_secir_simple.model) start() (memilio.epidata.progress_indicator.Percentage method) (memilio.epidata.progress_indicator.ProgressIndicator method) step() (memilio.epidata.progress_indicator.ProgressIndicator method) stop() (memilio.epidata.progress_indicator.Percentage method) (memilio.epidata.progress_indicator.ProgressIndicator method)

T

test_total_population() (in module memilio.epidata.getPopulationData) Trace (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute)

transform_weeks_to_dates() (in module memilio.epidata.getTestingData) transformWeatherData() (in module memilio.epidata.transformWeatherData)

U

updateMobility2022() (in module memilio.epidata.transformMobilityData)

user_choice() (in module memilio.epidata.getDataIntoPandasDataFrame)

V

v_level (memilio.epidata.getDataIntoPandasDataFrame.Conf attribute)

VerbosityLevel (class in memilio.epidata.getDataIntoPandasDataFrame) verify_sorted() (in module memilio.epidata.getCommuterMobility)

W

Warning (memilio.epidata.getDataIntoPandasDataFrame.VerbosityLevel attribute) write_case_data() (in module memilio.epidata.getCaseData) write_dataframe() (in module memilio.epidata.getDataIntoPandasDataFrame)

write_divi_data() (in module memilio.epidata.getDIVIData) write_population_data() (in module memilio.epidata.getPopulationData) write_vaccination_data() (in module memilio.epidata.getVaccinationData)