Index A | B | C | D | E | F | H | I | L | M | N | O | P | R | S | T | V | Y A add_ground_truth_file() (pyDeid.CSVEvaluator.CSVEvaluator method) add_phi_list() (in module pyDeid.phi_types.utils) add_result_file() (pyDeid.CSVEvaluator.CSVEvaluator method) add_type() (in module pyDeid.phi_types.utils) AddressPHIFinder (class in pyDeid.phi_types.AddressPHIFinder) all_first_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) all_last_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) apt_indicators (pyDeid.phi_types.AddressPHIFinder.AddressPHIFinder attribute) arguments (pyDeid.phi_types.utils.CustomRegex attribute) B build() (pyDeid.pyDeidBuilder.pyDeidBuilder method) C calculate_metrics() (pyDeid.CSVEvaluator.CSVEvaluator method) combine_files() (pyDeid.CSVEvaluator.CSVEvaluator method) create_custom_regex() (in module pyDeid.phi_types.utils) CSVEvaluator (class in pyDeid.CSVEvaluator) custom_dr_first_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) custom_dr_last_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) custom_patient_first_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) custom_patient_last_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) custom_regexes (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) CustomRegex (class in pyDeid.phi_types.utils) D Date (class in pyDeid.phi_types.DatesPHIFinder) date() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) date_range() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) date_string (pyDeid.phi_types.DatesPHIFinder.Date attribute) date_with_context_check() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) DatesPHIFinder (class in pyDeid.phi_types.DatesPHIFinder) day (pyDeid.phi_types.DatesPHIFinder.Date attribute) days (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder attribute) deid_string() (in module pyDeid.pyDeid) Deidentifier (class in pyDeid.Deidentifier) display_deid() (in module pyDeid.pyDeid) doctor_first_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) doctor_last_names (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) E EmailPHIFinder (class in pyDeid.phi_types.EmailPHIFinder) end (pyDeid.phi_types.PHITypeFinder.PHI attribute) (pyDeid.phi_types.utils.PHI attribute) eponym_indicators (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) evaluate() (pyDeid.CSVEvaluator.CSVEvaluator method) F female_names_ambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) female_names_popular (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) female_names_unambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) find() (pyDeid.phi_types.AddressPHIFinder.AddressPHIFinder method) (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) (pyDeid.phi_types.EmailPHIFinder.EmailPHIFinder method) (pyDeid.phi_types.HospitalNamePHIFinder.HospitalNamePHIFinder method) (pyDeid.phi_types.MrnPHIFinder.MrnPHIFinder method) (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder method) (pyDeid.phi_types.OhipPHIFinder.OhipPHIFinder method) (pyDeid.phi_types.PHITypeFinder.PHITypeFinder method) (pyDeid.phi_types.PostalCodePHIFinder.PostalCodePHIFinder method) (pyDeid.phi_types.SinPHIFinder.SinPHIFinder method) (pyDeid.phi_types.TelephoneFaxPHIFinder.TelephoneFaxPHIFinder method) find_phi() (pyDeid.process_note.PHIFinder.PHIFinder method) find_time() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) H handle_csv_row() (pyDeid.process_note.PHIHandler.PHIHandler method) handle_string() (pyDeid.process_note.PHIHandler.PHIHandler method) holiday() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) HospitalNamePHIFinder (class in pyDeid.phi_types.HospitalNamePHIFinder) hours (pyDeid.phi_types.DatesPHIFinder.Time attribute) I is_ambig() (in module pyDeid.phi_types.utils) is_common() (in module pyDeid.phi_types.utils) is_commonest() (in module pyDeid.phi_types.utils) is_medical_eponym() (in module pyDeid.phi_types.utils) is_name_indicator() (in module pyDeid.phi_types.utils) is_probably_measurement() (in module pyDeid.phi_types.utils) is_type() (in module pyDeid.phi_types.utils) is_unambig_common() (in module pyDeid.phi_types.utils) L last_name_prefixes (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) last_names_ambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) last_names_popular (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) last_names_unambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) load_file() (in module pyDeid.phi_types.utils) load_phi_types() (pyDeid.process_note.PHIReplacer.PHIReplacer method) M male_names_ambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) male_names_popular (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) male_names_unambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) medical_phrases (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) melt_annotations() (in module pyDeid.CSVEvaluator) merge_phi_dicts() (in module pyDeid.phi_types.utils) meridiem (pyDeid.phi_types.DatesPHIFinder.Time attribute) minutes (pyDeid.phi_types.DatesPHIFinder.Time attribute) module pyDeid pyDeid.cli pyDeid.CSVEvaluator pyDeid.Deidentifier pyDeid.phi_types pyDeid.phi_types.AddressPHIFinder pyDeid.phi_types.DatesPHIFinder pyDeid.phi_types.EmailPHIFinder pyDeid.phi_types.HospitalNamePHIFinder pyDeid.phi_types.MrnPHIFinder pyDeid.phi_types.NamesPHIFinder pyDeid.phi_types.OhipPHIFinder pyDeid.phi_types.PHITypeFinder pyDeid.phi_types.PostalCodePHIFinder pyDeid.phi_types.SinPHIFinder pyDeid.phi_types.TelephoneFaxPHIFinder pyDeid.phi_types.utils pyDeid.process_note pyDeid.process_note.PHIFinder pyDeid.process_note.PHIHandler pyDeid.process_note.PHIPruner pyDeid.process_note.PHIReplacer pyDeid.pyDeid pyDeid.pyDeidBuilder pyDeid.wordlists month (pyDeid.phi_types.DatesPHIFinder.Date attribute) monthly() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) months (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder attribute) MrnPHIFinder (class in pyDeid.phi_types.MrnPHIFinder) N name (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder property) name_indicators (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) NamesPHIFinder (class in pyDeid.phi_types.NamesPHIFinder) NamesPHIFinder.Config (class in pyDeid.phi_types.NamesPHIFinder) ner_model (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) O OhipPHIFinder (class in pyDeid.phi_types.OhipPHIFinder) P pattern (pyDeid.phi_types.utils.CustomRegex attribute) PHI (class in pyDeid.phi_types.PHITypeFinder) (class in pyDeid.phi_types.utils) phi (pyDeid.phi_types.PHITypeFinder.PHI attribute) (pyDeid.phi_types.utils.PHI attribute) phi_dict_to_list() (in module pyDeid.phi_types.utils) phi_type (pyDeid.phi_types.utils.CustomRegex attribute) phi_types (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) PHIFinder (class in pyDeid.process_note.PHIFinder) PHIFinder.Config (class in pyDeid.process_note.PHIFinder) PHIHandler (class in pyDeid.process_note.PHIHandler) PHIPruner (class in pyDeid.process_note.PHIPruner) PHIReplacer (class in pyDeid.process_note.PHIReplacer) PHITypeFinder (class in pyDeid.phi_types.PHITypeFinder) PostalCodePHIFinder (class in pyDeid.phi_types.PostalCodePHIFinder) prefixes_unambig (pyDeid.phi_types.NamesPHIFinder.NamesPHIFinder.Config attribute) prune_phi() (pyDeid.process_note.PHIPruner.PHIPruner method) pyDeid module pyDeid() (in module pyDeid.pyDeid) pyDeid.cli module pyDeid.CSVEvaluator module pyDeid.Deidentifier module pyDeid.phi_types module pyDeid.phi_types.AddressPHIFinder module pyDeid.phi_types.DatesPHIFinder module pyDeid.phi_types.EmailPHIFinder module pyDeid.phi_types.HospitalNamePHIFinder module pyDeid.phi_types.MrnPHIFinder module pyDeid.phi_types.NamesPHIFinder module pyDeid.phi_types.OhipPHIFinder module pyDeid.phi_types.PHITypeFinder module pyDeid.phi_types.PostalCodePHIFinder module pyDeid.phi_types.SinPHIFinder module pyDeid.phi_types.TelephoneFaxPHIFinder module pyDeid.phi_types.utils module pyDeid.process_note module pyDeid.process_note.PHIFinder module pyDeid.process_note.PHIHandler module pyDeid.process_note.PHIPruner module pyDeid.process_note.PHIReplacer module pyDeid.pyDeid module pyDeid.pyDeidBuilder module pyDeid.wordlists module pyDeidBuilder (class in pyDeid.pyDeidBuilder) R reid_string() (in module pyDeid.pyDeid) replace_phi() (pyDeid.process_note.PHIReplacer.PHIReplacer method) (pyDeid.pyDeidBuilder.pyDeidBuilder method) run() (pyDeid.Deidentifier.Deidentifier method) S season_year() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method) seasons (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder attribute) seconds (pyDeid.phi_types.DatesPHIFinder.Time attribute) set_custom_namelists() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_custom_regex() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_deid_output_file() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_finder() (pyDeid.process_note.PHIHandler.PHIHandler method) set_input_file() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_max_field_size() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_mll() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_multithreading() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_ner_pipeline() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_note() (pyDeid.phi_types.PHITypeFinder.PHITypeFinder method) (pyDeid.process_note.PHIFinder.PHIFinder method) (pyDeid.process_note.PHIHandler.PHIHandler method) (pyDeid.process_note.PHIPruner.PHIPruner method) (pyDeid.process_note.PHIReplacer.PHIReplacer method) set_phi_output_file() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_phi_types() (pyDeid.pyDeidBuilder.pyDeidBuilder method) set_phis() (pyDeid.phi_types.PHITypeFinder.PHITypeFinder method) (pyDeid.process_note.PHIFinder.PHIFinder method) (pyDeid.process_note.PHIHandler.PHIHandler method) (pyDeid.process_note.PHIPruner.PHIPruner method) (pyDeid.process_note.PHIReplacer.PHIReplacer method) set_pruner() (pyDeid.process_note.PHIHandler.PHIHandler method) set_replacer() (pyDeid.process_note.PHIHandler.PHIHandler method) set_valid_years() (pyDeid.pyDeidBuilder.pyDeidBuilder method) SinPHIFinder (class in pyDeid.phi_types.SinPHIFinder) standardize_phi() (pyDeid.CSVEvaluator.CSVEvaluator method) start (pyDeid.phi_types.PHITypeFinder.PHI attribute) (pyDeid.phi_types.utils.PHI attribute) street_add_suff (pyDeid.phi_types.AddressPHIFinder.AddressPHIFinder attribute) strict_street_add_suff (pyDeid.phi_types.AddressPHIFinder.AddressPHIFinder attribute) surrogate_builder_fn (pyDeid.phi_types.utils.CustomRegex attribute) T TelephoneFaxPHIFinder (class in pyDeid.phi_types.TelephoneFaxPHIFinder) Time (class in pyDeid.phi_types.DatesPHIFinder) time_string (pyDeid.phi_types.DatesPHIFinder.Time attribute) tokenize_csv() (in module pyDeid.CSVEvaluator) two_digit_threshold (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) V valid_year_high (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) valid_year_low (pyDeid.process_note.PHIFinder.PHIFinder.Config attribute) validate_and_read_file() (pyDeid.CSVEvaluator.CSVEvaluator static method) Y year (pyDeid.phi_types.DatesPHIFinder.Date attribute) year_with_context_check() (pyDeid.phi_types.DatesPHIFinder.DatesPHIFinder method)