Index

_

__init__() (_BaseHSIGenericFirstAppt method) (AgeUpdateEvent method) (Alri method) (AlriCheckPropertiesEvent method) (AlriCureEvent method) (AlriDeathEvent method) (AlriIncidentCase method) (AlriIncidentCase_Lethal_DangerSigns_Pneumonia method) (AlriIncidentCase_NonLethal_Fast_Breathing_Pneumonia method) (AlriIndividualLoggingEvent method) (AlriLoggingEvent method) (AlriNaturalRecoveryEvent method) (AlriPollingEvent method) (BirthAndPostnatalOutcomesEvent method) (BladderCancer method) (BladderCancerLoggingEvent method) (BladderCancerMainPollingEvent method) (BreastCancer method) (BreastCancerLoggingEvent method) (BreastCancerMainPollingEvent method) (BreastfeedingStatusUpdateEventSixMonths method) (BreastfeedingStatusUpdateEventTwoYears method) (CardioMetabolicDisorders method) (CardioMetabolicDisorders_LoggingEvent method) (CardioMetabolicDisorders_MainPollingEvent method) (CardioMetabolicDisordersDeathEvent method) (CardioMetabolicDisordersEvent method) (CardioMetabolicDisordersWeightLossEvent method) (CareOfWomenDuringPregnancy method) (CareOfWomenDuringPregnancyLoggingEvent method) (ChronicSyndrome method) (ChronicSyndrome_LaunchOutreachEvent method) (ChronicSyndrome_PopulationWideBehaviourChange method) (ChronicSyndromeDeathEvent method) (ChronicSyndromeEvent method) (ChronicSyndromeLoggingEvent method) (ConstantRescalingHRCapabilities method) (Contraception method) (ContraceptionLoggingEvent method) (ContraceptionPoll method) (Copd method) (CopdDeath method) (CopdExacerbationEvent method) (CopdPollEvent method) (Demography method) (DemographyLoggingEvent method) (Depression method) (DepressionLoggingEvent method) (DepressionPollingEvent method) (DepressionSelfHarmEvent method) (DepressionSuicideEvent method) (Deviance method) (Diarrhoea method) (DiarrhoeaCheckPropertiesEvent method) (DiarrhoeaCureEvent method) (DiarrhoeaDeathEvent method) (DiarrhoeaIncidentCase method) (DiarrhoeaNaturalRecoveryEvent method) (DiarrhoeaPollingEvent method) (DiarrhoeaPropertiesOfOtherModules method) (DirectBirth method) (DummyHivModule method) (DummyTbModule method) (DynamicRescalingHRCapabilities method) (EarlyPregnancyLossDeathEvent method) (EctopicPregnancyEvent method) (EctopicPregnancyRuptureEvent method) (EndOfPregnancyEvent method) (Epi method) (Epilepsy method) (EpilepsyEvent method) (EpilepsyLoggingEvent method) (EpiLoggingEvent method) (GestationalDiabetesGlycaemicControlEvent method) (Get_Current_DALYS method) (HealthBurden method) (Healthburden_WriteToLog method) (HealthSeekingBehaviour method) (HealthSeekingBehaviourPoll method) (HealthSystem method) (HealthSystemChangeMode method) (HealthSystemChangeParameters method) (HealthSystemLogger method) (HealthSystemScheduler method) (Hiv method) (Hiv_DecisionToContinueOnPrEP method) (Hiv_DecisionToContinueTreatment method) (HivAidsDeathEvent method) (HivAidsOnsetEvent method) (HivAidsTbDeathEvent method) (HivCheckPropertiesEvent method) (HivInfectionDuringBreastFeedingEvent method) (HivInfectionEvent method) (HivLoggingEvent method) (HivRegularPollingEvent method) (HivScaleUpEvent method) (HpvScheduleEvent method) (HSI_Alri_Treatment method) (HSI_BladderCancer_Investigation_Following_Blood_Urine method) (HSI_BladderCancer_Investigation_Following_pelvic_pain method) (HSI_BladderCancer_PalliativeCare method) (HSI_BladderCancer_PostTreatmentCheck method) (HSI_BladderCancer_StartTreatment method) (HSI_BreastCancer_Investigation_Following_breast_lump_discernible method) (HSI_BreastCancer_PalliativeCare method) (HSI_BreastCancer_PostTreatmentCheck method) (HSI_BreastCancer_StartTreatment method) (HSI_CardioMetabolicDisorders_CommunityTestingForHypertension method) (HSI_CardioMetabolicDisorders_Investigations method) (HSI_CardioMetabolicDisorders_Refill_Medication method) (HSI_CardioMetabolicDisorders_SeeksEmergencyCareAndGetsTreatment method) (HSI_CardioMetabolicDisorders_StartWeightLossAndMedication method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfAnaemia method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfGestationalDiabetes method) (HSI_CareOfWomenDuringPregnancy_AntenatalWardInpatientCare method) (HSI_CareOfWomenDuringPregnancy_EighthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FifthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FirstAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FocusedANCVisit method) (HSI_CareOfWomenDuringPregnancy_FourthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_PostAbortionCaseManagement method) (HSI_CareOfWomenDuringPregnancy_PresentsForInductionOfLabour method) (HSI_CareOfWomenDuringPregnancy_SecondAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SeventhAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SixthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_ThirdAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy method) (HSI_ChronicSyndrome_Outreach_Individual method) (HSI_ChronicSyndrome_SeeksEmergencyCareAndGetsTreatment method) (HSI_Contraception_FamilyPlanningAppt method) (HSI_Copd_TreatmentOnSevereExacerbation method) (HSI_Depression_Refill_Antidepressant method) (HSI_Depression_Start_Antidepressant method) (HSI_Depression_TalkingTherapy method) (HSI_Diarrhoea_Treatment_Inpatient method) (HSI_Diarrhoea_Treatment_Outpatient method) (HSI_EmergencyCare_SpuriousSymptom method) (HSI_Epilepsy_Follow_Up method) (HSI_Epilepsy_Start_Anti_Epileptic method) (HSI_Event method) (HSI_GenericEmergencyFirstAppt method) (HSI_GenericNonEmergencyFirstAppt method) (HSI_Hiv_Circ method) (HSI_Hiv_EndOfLifeCare method) (HSI_Hiv_StartInfantProphylaxis method) (HSI_Hiv_StartOrContinueOnPrep method) (HSI_Hiv_StartOrContinueTreatment method) (HSI_Hiv_TestAndRefer method) (HSI_Labour_PostnatalWardInpatientCare method) (HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare method) (HSI_Labour_ReceivesPostnatalCheck method) (HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour method) (HSI_Malaria_rdt method) (HSI_Malaria_rdt_community method) (HSI_Malaria_Treatment method) (HSI_Malaria_Treatment_Complicated method) (HSI_MalariaIPTp method) (HSI_Measles_Treatment method) (HSI_Mockitis_PresentsForCareWithSevereSymptoms method) (HSI_Mockitis_StartTreatment method) (HSI_Mockitis_TreatmentMonitoring method) (HSI_NewbornOutcomes_NeonatalWardInpatientCare method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) (HSI_OesophagealCancer_Investigation_Following_Dysphagia method) (HSI_OesophagealCancer_PalliativeCare method) (HSI_OesophagealCancer_PostTreatmentCheck method) (HSI_OesophagealCancer_StartTreatment method) (HSI_OtherAdultCancer_Investigation_Following_early_other_adult_ca_symptom method) (HSI_OtherAdultCancer_PalliativeCare method) (HSI_OtherAdultCancer_PostTreatmentCheck method) (HSI_OtherAdultCancer_StartTreatment method) (HSI_PostnatalSupervisor_TreatmentForObstetricFistula method) (HSI_ProstateCancer_Investigation_Following_Pelvic_Pain method) (HSI_ProstateCancer_Investigation_Following_psa_positive method) (HSI_ProstateCancer_Investigation_Following_Urinary_Symptoms method) (HSI_ProstateCancer_PalliativeCare method) (HSI_ProstateCancer_PostTreatmentCheck method) (HSI_ProstateCancer_StartTreatment method) (HSI_RTI_Acute_Pain_Management method) (HSI_RTI_Burn_Management method) (HSI_RTI_Fracture_Cast method) (HSI_RTI_Imaging_Event method) (HSI_RTI_Major_Surgeries method) (HSI_RTI_Medical_Intervention method) (HSI_RTI_Minor_Surgeries method) (HSI_RTI_Open_Fracture_Treatment method) (HSI_RTI_Shock_Treatment method) (HSI_RTI_Suture method) (HSI_RTI_Tetanus_Vaccine method) (HSI_Schisto_MDA method) (HSI_Schisto_TestingFollowingSymptoms method) (HSI_Schisto_TreatmentFollowingDiagnosis method) (HSI_Skeleton_Example_Interaction method) (HSI_Stunting_ComplementaryFeeding method) (HSI_Tb_ClinicalDiagnosis method) (HSI_Tb_Culture method) (HSI_Tb_EndOfLifeCare method) (HSI_Tb_FollowUp method) (HSI_Tb_ScreeningAndRefer method) (HSI_Tb_Start_or_Continue_Ipt method) (HSI_Tb_StartTreatment method) (HSI_Tb_Xray_level1b method) (HSI_Tb_Xray_level2 method) (HsiBaseVaccine method) (HSIEventWrapper method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (InstantaneousDeath method) (Labour method) (LabourAndPostnatalCareAnalysisEvent method) (LabourAtHomeEvent method) (LabourDeathAndStillBirthEvent method) (LabourLoggingEvent method) (LabourOnsetEvent method) (Lifestyle method) (LifestyleEvent method) (LifestylesLoggingEvent method) (Malaria method) (MalariaDeathEvent method) (MalariaEndIPTpProtection method) (MalariaIPTp method) (MalariaLoggingEvent method) (MalariaParasiteClearanceEvent method) (MalariaPollingEventDistrict method) (MalariaPrevDistrictLoggingEvent method) (MalariaScaleUpEvent method) (MalariaTxLoggingEvent method) (MalariaUpdateEvent method) (Measles method) (MeaslesDeathEvent method) (MeaslesEvent method) (MeaslesLoggingAnnualEvent method) (MeaslesLoggingEvent method) (MeaslesLoggingFortnightEvent method) (MeaslesOnsetEvent method) (MeaslesSymptomResolveEvent method) (Mockitis method) (MockitisDeathEvent method) (MockitisEvent method) (MockitisLoggingEvent method) (NewbornOutcomes method) (OesCancerLoggingEvent method) (OesCancerMainPollingEvent method) (OesophagealCancer method) (OtherAdultCancer method) (OtherAdultCancerLoggingEvent method) (OtherAdultCancerMainPollingEvent method) (OtherDeathPoll method) (ParameterUpdateEvent method) (PostnatalSupervisor method) (PostnatalSupervisorEvent method) (PostnatalWeekOneMaternalEvent method) (PostnatalWeekOneNeonatalEvent method) (PregnancyAnalysisEvent method) (PregnancyLoggingEvent method) (PregnancySupervisor method) (PregnancySupervisorEvent method) (ProstateCancer method) (ProstateCancerLoggingEvent method) (ProstateCancerMainPollingEvent method) (RescaleHRCapabilities_ByDistrict method) (RTI method) (RTI_Check_Death_No_Med method) (RTI_Logging_Event method) (RTI_Medical_Intervention_Death_Event method) (RTI_No_Lifesaving_Medical_Intervention_Death_Event method) (RTI_Recovery_Event method) (RTIPollingEvent method) (ScenarioSwitchEvent method) (Schisto method) (SchistoInfectionWormBurdenEvent method) (SchistoLoggingEvent method) (SchistoMatureWorms method) (SchistoMDAEvent method) (SchistoWormsNatDeath method) (SimplifiedBirths method) (SimplifiedBirthsPoll method) (SimplifiedPregnancyAndLabour method) (Skeleton method) (Skeleton_Event method) (Skeleton_LoggingEvent method) (StartInterventions method) (Stunting method) (StuntingLoggingEvent method) (StuntingPollingEvent method) (StuntingPropertiesOfOtherModules method) (SymptomManager method) (SymptomManager_AutoOnsetEvent method) (SymptomManager_AutoResolveEvent method) (SymptomManager_SpuriousSymptomOnset method) (SymptomManager_SpuriousSymptomResolve method) (SyphilisInPregnancyEvent method) (Tb method) (Tb_DecisionToContinueIPT method) (TbActiveCasePoll method) (TbActiveEvent method) (TbCheckPropertiesEvent method) (TbDeathEvent method) (TbDecideDeathEvent method) (TbLoggingEvent method) (TbRegularEvents method) (TbScaleUpEvent method) (TbSelfCureEvent method) (Wasting method)

_add_hsi_event_queue_item_to_hsi_event_queue() (HealthSystem method) _adjust_facility_level_to_merge_1b_and_2() (HSI_Event method) _as_in_patient() (HSI_Alri_Treatment method) _as_out_patient() (HSI_Alri_Treatment method) _assess_and_treat() (HSI_Alri_Treatment method) _BaseHSIGenericFirstAppt (class in tlo.methods.hsi_generic_first_appts) _build_linear_models() (Hiv method) (Malaria method) (Tb method) _check_for_suspected_depression() (Depression method) _check_if_appt_footprint_can_run() (HSI_Event method) _common_first_appt() (Copd method) _common_first_appt_steps() (RTI method) _diagnosis_function() (_BaseHSIGenericFirstAppt method) _do_action_given_classification() (HSI_Alri_Treatment method) _do_at_generic_first_appt_for_module() (_BaseHSIGenericFirstAppt static method) (HSI_GenericEmergencyFirstAppt static method) (HSI_GenericNonEmergencyFirstAppt static method) _edit_init_pop_so_that_equal_number_in_each_district() (Demography static method) _edit_init_pop_to_prevent_persons_greater_than_max_age() (Demography method) _get_appt_footprint() (HSI_Contraception_FamilyPlanningAppt method) _get_classification_given_by_health_worker() (HSI_Alri_Treatment method) _get_cons() (HSI_Alri_Treatment method) _get_cons_group() (HSI_Alri_Treatment method) _get_cons_with_backups() (HSI_Alri_Treatment method) _get_disability_weight() (Schisto method) _get_disease_classification_for_treatment_decision() (HSI_Alri_Treatment method) _get_events_due_today() (HealthSystemScheduler method) _get_facility_level_for_pnc() (HSI_Labour_ReceivesPostnatalCheck method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) _get_imci_classification_based_on_symptoms() (HSI_Alri_Treatment method) _get_imci_classification_by_SpO2_measure() (HSI_Alri_Treatment static method) _get_item_code_for_praziquantel() (Schisto method) _get_most_recent_year_specified_for_a_change_in_configuration() (DynamicRescalingHRCapabilities method) _has_any_symptoms() (HealthSeekingBehaviourPoll static method) _has_staph_aureus() (HSI_Alri_Treatment method) _is_last_day_of_the_month() (HealthSystemScheduler static method) _is_last_day_of_the_year() (HealthSystemScheduler static method) _load_parameters_from_workbook() (Schisto method) _provide_bronchodilator_if_wheeze() (HSI_Alri_Treatment method) _refer_to_become_inpatient() (HSI_Alri_Treatment method) _refer_to_next_level_up() (HSI_Alri_Treatment method) _register_symptoms() (Schisto method) _rescale_capabilities_to_capture_effective_capability() (HealthSystem method) _return_item_codes_in_dict() (HSI_Event static method) _run_after_hsi_event() (HSI_Event method) _schedule_follow_up_following_treatment_failure() (HSI_Alri_Treatment method) _schedule_mda_events() (Schisto method) _select_recipients() (SchistoMDAEvent method) _ultimate_treatment_indicated_for_patient() (Alri static method) _write_hsi_event_counts_to_log_and_reset() (HealthSystem method) _write_never_ran_hsi_event_counts_to_log_and_reset() (HealthSystem method)

A

active_management_of_the_third_stage_of_labour() (Labour method) add_arguments() (BaseScenario method) add_equipment() (HSI_Event method) add_tasks() (in module tlo.cli) addHandler() (Logger method) ADDITIONAL_DEPENDENCIES (Module attribute) ADDITIVE (LinearModelType attribute) AgeUpdateEvent (class in tlo.methods.demography) albendazole_administration() (CareOfWomenDuringPregnancy method) Alri (class in tlo.methods.alri) AlriCheckPropertiesEvent (class in tlo.methods.alri) AlriCureEvent (class in tlo.methods.alri) AlriDeathEvent (class in tlo.methods.alri) AlriIncidentCase (class in tlo.methods.alri) AlriIncidentCase_Lethal_DangerSigns_Pneumonia (class in tlo.methods.alri) AlriIncidentCase_NonLethal_Fast_Breathing_Pneumonia (class in tlo.methods.alri) AlriIndividualLoggingEvent (class in tlo.methods.alri) AlriLoggingEvent (class in tlo.methods.alri) AlriNaturalRecoveryEvent (class in tlo.methods.alri) AlriPollingEvent (class in tlo.methods.alri) AlriPropertiesOfOtherModules (class in tlo.methods.alri) ALTERNATIVE_TO (Module attribute) AnsiStreamDisplay (class in tlo.progressbar) antenatal_blood_transfusion() (CareOfWomenDuringPregnancy method) antenatal_care_scheduler() (CareOfWomenDuringPregnancy method) antibiotics_for_prom() (CareOfWomenDuringPregnancy method) apply() (_BaseHSIGenericFirstAppt method) (AgeUpdateEvent method) (AlriCheckPropertiesEvent method) (AlriCureEvent method) (AlriDeathEvent method) (AlriIncidentCase method) (AlriIncidentCase_Lethal_DangerSigns_Pneumonia method) (AlriIncidentCase_NonLethal_Fast_Breathing_Pneumonia method) (AlriIndividualLoggingEvent method) (AlriLoggingEvent method) (AlriNaturalRecoveryEvent method) (AlriPollingEvent method) (BirthAndPostnatalOutcomesEvent method) (BladderCancerLoggingEvent method) (BladderCancerMainPollingEvent method) (BreastCancerLoggingEvent method) (BreastCancerMainPollingEvent method) (BreastfeedingStatusUpdateEventSixMonths method) (BreastfeedingStatusUpdateEventTwoYears method) (CardioMetabolicDisorders_LoggingEvent method) (CardioMetabolicDisorders_MainPollingEvent method) (CardioMetabolicDisordersDeathEvent method) (CardioMetabolicDisordersEvent method) (CardioMetabolicDisordersWeightLossEvent method) (CareOfWomenDuringPregnancyLoggingEvent method) (ChronicSyndrome_LaunchOutreachEvent method) (ChronicSyndrome_PopulationWideBehaviourChange method) (ChronicSyndromeDeathEvent method) (ChronicSyndromeEvent method) (ChronicSyndromeLoggingEvent method) (ConstantRescalingHRCapabilities method) (ContraceptionLoggingEvent method) (ContraceptionPoll method) (CopdDeath method) (CopdExacerbationEvent method) (CopdPollEvent method) (DelayedBirthEvent method) (DemographyLoggingEvent method) (DepressionLoggingEvent method) (DepressionPollingEvent method) (DepressionSelfHarmEvent method) (DepressionSuicideEvent method) (DiarrhoeaCheckPropertiesEvent method) (DiarrhoeaCureEvent method) (DiarrhoeaDeathEvent method) (DiarrhoeaIncidentCase method) (DiarrhoeaNaturalRecoveryEvent method) (DiarrhoeaPollingEvent method) (DirectBirth method) (DynamicRescalingHRCapabilities method) (EarlyPregnancyLossDeathEvent method) (EctopicPregnancyEvent method) (EctopicPregnancyRuptureEvent method) (EndOfPregnancyEvent method) (EpilepsyEvent method) (EpilepsyLoggingEvent method) (EpiLoggingEvent method) (Event method) (GestationalDiabetesGlycaemicControlEvent method) (Get_Current_DALYS method) (Healthburden_WriteToLog method) (HealthSeekingBehaviourPoll method) (HealthSystemChangeMode method) (HealthSystemChangeParameters method) (HealthSystemLogger method) (HealthSystemScheduler method) (Hiv_DecisionToContinueOnPrEP method) (Hiv_DecisionToContinueTreatment method) (HivAidsDeathEvent method) (HivAidsOnsetEvent method) (HivAidsTbDeathEvent method) (HivCheckPropertiesEvent method) (HivInfectionDuringBreastFeedingEvent method) (HivInfectionEvent method) (HivLoggingEvent method) (HivRegularPollingEvent method) (HivScaleUpEvent method) (HpvScheduleEvent method) (HSI_Alri_Treatment method) (HSI_BcgVaccine method) (HSI_BladderCancer_Investigation_Following_Blood_Urine method) (HSI_BladderCancer_Investigation_Following_pelvic_pain method) (HSI_BladderCancer_PalliativeCare method) (HSI_BladderCancer_PostTreatmentCheck method) (HSI_BladderCancer_StartTreatment method) (HSI_BreastCancer_Investigation_Following_breast_lump_discernible method) (HSI_BreastCancer_PalliativeCare method) (HSI_BreastCancer_PostTreatmentCheck method) (HSI_BreastCancer_StartTreatment method) (HSI_CardioMetabolicDisorders_CommunityTestingForHypertension method) (HSI_CardioMetabolicDisorders_Investigations method) (HSI_CardioMetabolicDisorders_Refill_Medication method) (HSI_CardioMetabolicDisorders_SeeksEmergencyCareAndGetsTreatment method) (HSI_CardioMetabolicDisorders_StartWeightLossAndMedication method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfAnaemia method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfGestationalDiabetes method) (HSI_CareOfWomenDuringPregnancy_AntenatalWardInpatientCare method) (HSI_CareOfWomenDuringPregnancy_EighthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FifthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FirstAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FocusedANCVisit method) (HSI_CareOfWomenDuringPregnancy_FourthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_PostAbortionCaseManagement method) (HSI_CareOfWomenDuringPregnancy_PresentsForInductionOfLabour method) (HSI_CareOfWomenDuringPregnancy_SecondAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SeventhAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SixthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_ThirdAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy method) (HSI_ChronicSyndrome_Outreach_Individual method) (HSI_ChronicSyndrome_SeeksEmergencyCareAndGetsTreatment method) (HSI_Contraception_FamilyPlanningAppt method) (HSI_Copd_TreatmentOnSevereExacerbation method) (HSI_Depression_Refill_Antidepressant method) (HSI_Depression_Start_Antidepressant method) (HSI_Depression_TalkingTherapy method) (HSI_Diarrhoea_Treatment_Inpatient method) (HSI_Diarrhoea_Treatment_Outpatient method) (HSI_DtpHibHepVaccine method) (HSI_EmergencyCare_SpuriousSymptom method) (HSI_Epilepsy_Follow_Up method) (HSI_Epilepsy_Start_Anti_Epileptic method) (HSI_Event method) (HSI_Hiv_Circ method) (HSI_Hiv_EndOfLifeCare method) (HSI_Hiv_StartInfantProphylaxis method) (HSI_Hiv_StartOrContinueOnPrep method) (HSI_Hiv_StartOrContinueTreatment method) (HSI_Hiv_TestAndRefer method) (HSI_HpvVaccine method) (HSI_Labour_PostnatalWardInpatientCare method) (HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare method) (HSI_Labour_ReceivesPostnatalCheck method) (HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour method) (HSI_Malaria_rdt method) (HSI_Malaria_rdt_community method) (HSI_Malaria_Treatment method) (HSI_Malaria_Treatment_Complicated method) (HSI_MalariaIPTp method) (HSI_Measles_Treatment method) (HSI_MeaslesRubellaVaccine method) (HSI_Mockitis_PresentsForCareWithSevereSymptoms method) (HSI_Mockitis_StartTreatment method) (HSI_Mockitis_TreatmentMonitoring method) (HSI_NewbornOutcomes_NeonatalWardInpatientCare method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) (HSI_OesophagealCancer_Investigation_Following_Dysphagia method) (HSI_OesophagealCancer_PalliativeCare method) (HSI_OesophagealCancer_PostTreatmentCheck method) (HSI_OesophagealCancer_StartTreatment method) (HSI_opv method) (HSI_OtherAdultCancer_Investigation_Following_early_other_adult_ca_symptom method) (HSI_OtherAdultCancer_PalliativeCare method) (HSI_OtherAdultCancer_PostTreatmentCheck method) (HSI_OtherAdultCancer_StartTreatment method) (HSI_PneumoVaccine method) (HSI_PostnatalSupervisor_TreatmentForObstetricFistula method) (HSI_ProstateCancer_Investigation_Following_Pelvic_Pain method) (HSI_ProstateCancer_Investigation_Following_psa_positive method) (HSI_ProstateCancer_Investigation_Following_Urinary_Symptoms method) (HSI_ProstateCancer_PalliativeCare method) (HSI_ProstateCancer_PostTreatmentCheck method) (HSI_ProstateCancer_StartTreatment method) (HSI_RotaVaccine method) (HSI_RTI_Acute_Pain_Management method) (HSI_RTI_Burn_Management method) (HSI_RTI_Fracture_Cast method) (HSI_RTI_Imaging_Event method) (HSI_RTI_Major_Surgeries method) (HSI_RTI_Medical_Intervention method) (HSI_RTI_Minor_Surgeries method) (HSI_RTI_Open_Fracture_Treatment method) (HSI_RTI_Shock_Treatment method) (HSI_RTI_Suture method) (HSI_RTI_Tetanus_Vaccine method) (HSI_Schisto_MDA method) (HSI_Schisto_TestingFollowingSymptoms method) (HSI_Schisto_TreatmentFollowingDiagnosis method) (HSI_Skeleton_Example_Interaction method) (HSI_Stunting_ComplementaryFeeding method) (HSI_Tb_ClinicalDiagnosis method) (HSI_Tb_Culture method) (HSI_Tb_EndOfLifeCare method) (HSI_Tb_FollowUp method) (HSI_Tb_ScreeningAndRefer method) (HSI_Tb_Start_or_Continue_Ipt method) (HSI_Tb_StartTreatment method) (HSI_Tb_Xray_level1b method) (HSI_Tb_Xray_level2 method) (HSI_TdVaccine method) (HsiBaseVaccine method) (IndividualScopeEventMixin method) (InstantaneousDeath method) (LabourAndPostnatalCareAnalysisEvent method) (LabourAtHomeEvent method) (LabourDeathAndStillBirthEvent method) (LabourLoggingEvent method) (LabourOnsetEvent method) (LifestyleEvent method) (LifestylesLoggingEvent method) (MalariaDeathEvent method) (MalariaEndIPTpProtection method) (MalariaIPTp method) (MalariaLoggingEvent method) (MalariaParasiteClearanceEvent method) (MalariaPollingEventDistrict method) (MalariaPrevDistrictLoggingEvent method) (MalariaScaleUpEvent method) (MalariaTxLoggingEvent method) (MalariaUpdateEvent method) (MeaslesDeathEvent method) (MeaslesEvent method) (MeaslesLoggingAnnualEvent method) (MeaslesLoggingEvent method) (MeaslesLoggingFortnightEvent method) (MeaslesOnsetEvent method) (MeaslesSymptomResolveEvent method) (MockitisDeathEvent method) (MockitisEvent method) (MockitisLoggingEvent method) (OesCancerLoggingEvent method) (OesCancerMainPollingEvent method) (OtherAdultCancerLoggingEvent method) (OtherAdultCancerMainPollingEvent method) (OtherDeathPoll method) (ParameterUpdateEvent method) (PopulationScopeEventMixin method) (PostnatalSupervisorEvent method) (PostnatalWeekOneMaternalEvent method) (PostnatalWeekOneNeonatalEvent method) (Predictor method) (PregnancyAnalysisEvent method) (PregnancyLoggingEvent method) (PregnancySupervisorEvent method) (ProstateCancerLoggingEvent method) (ProstateCancerMainPollingEvent method) (RandomDeathEvent method) (RandomPregnancyEvent method) (RegularEvent method) (RescaleHRCapabilities_ByDistrict method) (RTI_Check_Death_No_Med method) (RTI_Logging_Event method) (RTI_Medical_Intervention_Death_Event method) (RTI_No_Lifesaving_Medical_Intervention_Death_Event method) (RTI_Recovery_Event method) (RTIPollingEvent method) (ScenarioSwitchEvent method) (SchistoInfectionWormBurdenEvent method) (SchistoLoggingEvent method) (SchistoMatureWorms method) (SchistoMDAEvent method) (SchistoWormsNatDeath method) (SimplifiedBirthsPoll method) (Skeleton_Event method) (Skeleton_LoggingEvent method) (StartInterventions method) (StuntingLoggingEvent method) (StuntingPollingEvent method) (SymptomManager_AutoOnsetEvent method) (SymptomManager_AutoResolveEvent method) (SymptomManager_SpuriousSymptomOnset method) (SymptomManager_SpuriousSymptomResolve method) (SyphilisInPregnancyEvent method) (Tb_DecisionToContinueIPT method) (TbActiveCasePoll method) (TbActiveEvent method) (TbCheckPropertiesEvent method) (TbDeathEvent method) (TbDecideDeathEvent method) (TbLoggingEvent method) (TbRegularEvents method) (TbScaleUpEvent method) (TbSelfCureEvent method)

apply_characteristics_of_the_case() (AlriIncidentCase method) apply_effect_of_neonatal_resus() (NewbornOutcomes method) apply_linear_model() (Depression method) (PostnatalSupervisor method) (PregnancySupervisor method) apply_model() (StuntingPollingEvent method) apply_risk_of_abortion_complications() (PregnancySupervisor method) apply_risk_of_anaemia() (PregnancySupervisor method) apply_risk_of_antepartum_haemorrhage() (PregnancySupervisor method) apply_risk_of_congenital_anomaly() (NewbornOutcomes method) apply_risk_of_death_from_hypertension() (PregnancySupervisor method) apply_risk_of_death_from_monthly_complications() (PregnancySupervisor method) apply_risk_of_early_postpartum_death() (Labour method) apply_risk_of_encephalopathy() (NewbornOutcomes method) apply_risk_of_gestational_diabetes() (PregnancySupervisor method) apply_risk_of_hypertensive_disorders() (PregnancySupervisor method) apply_risk_of_induced_abortion() (PregnancySupervisor method) apply_risk_of_maternal_or_neonatal_death_postnatal() (PostnatalSupervisor method) apply_risk_of_neonatal_complications_in_week_one() (PostnatalSupervisor method) apply_risk_of_neonatal_infection_and_sepsis() (NewbornOutcomes method) apply_risk_of_not_breathing_at_birth() (NewbornOutcomes method) apply_risk_of_placental_abruption() (PregnancySupervisor method) apply_risk_of_premature_rupture_of_membranes_and_chorioamnionitis() (PregnancySupervisor method) apply_risk_of_preterm_labour() (PregnancySupervisor method) apply_risk_of_preterm_respiratory_distress_syndrome() (NewbornOutcomes method) apply_risk_of_progression_of_hypertension() (PregnancySupervisor method) apply_risk_of_spontaneous_abortion() (PregnancySupervisor method) apply_risk_of_still_birth() (PregnancySupervisor method) appt_footprint_is_valid() (HealthSystem method) as_namedtuple() (HSI_Event method) assessment_and_plan_for_antepartum_haemorrhage() (Labour method) assessment_and_treatment_newborn_sepsis() (NewbornOutcomes method) assessment_and_treatment_of_anaemia() (Labour method) assessment_and_treatment_of_eclampsia() (Labour method) assessment_and_treatment_of_hypertension() (Labour method) assessment_and_treatment_of_maternal_sepsis() (Labour method) assessment_and_treatment_of_pph_retained_placenta() (Labour method) assessment_and_treatment_of_pph_uterine_atony() (Labour method) assessment_and_treatment_of_severe_pre_eclampsia_mgso4() (Labour method) assessment_for_assisted_vaginal_delivery() (Labour method) assessment_for_depression() (Labour method) assessment_for_referral_uterine_rupture() (Labour method) assign_active_tb() (Tb method) assign_symptoms() (MeaslesOnsetEvent method)

B

balance_energy_and_protein_supplementation() (CareOfWomenDuringPregnancy method) bar_color (ProgressBar property) BaseScenario (class in tlo.scenario) BasicStreamDisplay (class in tlo.progressbar) bin_hsi_event_details() (in module tlo.analysis.utils) BirthAndPostnatalOutcomesEvent (class in tlo.methods.labour) BITSET (Types attribute) BitsetHandler (class in tlo.util) BladderCancer (class in tlo.methods.bladder_cancer) BladderCancerLoggingEvent (class in tlo.methods.bladder_cancer)

BladderCancerMainPollingEvent (class in tlo.methods.bladder_cancer) blood_transfusion() (Labour method) BOOL (Types attribute) breast_feeding() (NewbornOutcomes method) BreastCancer (class in tlo.methods.breast_cancer) BreastCancerLoggingEvent (class in tlo.methods.breast_cancer) BreastCancerMainPollingEvent (class in tlo.methods.breast_cancer) BreastfeedingStatusUpdateEventSixMonths (class in tlo.methods.newborn_outcomes) BreastfeedingStatusUpdateEventTwoYears (class in tlo.methods.newborn_outcomes) build_linear_model() (CardioMetabolicDisorders method) build_linear_model_symptoms() (CardioMetabolicDisorders method)

C

calc_py_lived_in_last_year() (Demography method) calcium_supplementation() (CareOfWomenDuringPregnancy method) calculate_beddays() (CareOfWomenDuringPregnancy method) calculate_probability_of_dying() (in module tlo.analysis.life_expectancy) calculate_untreated_proportion() (Tb method) call_and_record_never_ran_hsi_event() (HealthSystem method) call_if_maternal_emergency_assessment_cant_run() (CareOfWomenDuringPregnancy method) cancel_death_and_schedule_cure() (Alri method) cancel_death_date() (Diarrhoea method) CardioMetabolicDisorders (class in tlo.methods.cardio_metabolic_disorders) CardioMetabolicDisorders_LoggingEvent (class in tlo.methods.cardio_metabolic_disorders) CardioMetabolicDisorders_MainPollingEvent (class in tlo.methods.cardio_metabolic_disorders) CardioMetabolicDisordersDeathEvent (class in tlo.methods.cardio_metabolic_disorders) CardioMetabolicDisordersEvent (class in tlo.methods.cardio_metabolic_disorders) CardioMetabolicDisordersWeightLossEvent (class in tlo.methods.cardio_metabolic_disorders) care_of_women_in_pregnancy_property_reset() (CareOfWomenDuringPregnancy method) care_seeking_pregnancy_loss_complications() (PregnancySupervisor method) CareOfWomenDuringPregnancy (class in tlo.methods.care_of_women_during_pregnancy) CareOfWomenDuringPregnancyLoggingEvent (class in tlo.methods.care_of_women_during_pregnancy) CATEGORICAL (Types attribute) caused_by() (SymptomManager method) causes_of() (SymptomManager method) CAUSES_OF_DEATH (Module attribute) CAUSES_OF_DISABILITY (Module attribute) change_symptom() (SymptomManager method) check_anc1_can_run() (CareOfWomenDuringPregnancy method) check_config_of_properties() (Hiv method) (Tb method) check_dependencies_present() (in module tlo.dependencies) check_hsi_event_is_valid() (HealthSystem method) check_if_event_and_do_death() (CardioMetabolicDisordersDeathEvent method) check_if_fever_is_caused_by_malaria() (Malaria method) check_intervention_should_run_and_update_mni() (CareOfWomenDuringPregnancy method) check_labour_can_proceed() (Labour method) check_multi_index() (HealthBurden method) check_params_read_in_ok() (Alri method) check_properties() (Alri method) (Diarrhoea method)

check_subsequent_anc_can_run() (CareOfWomenDuringPregnancy method) ChronicSyndrome (class in tlo.methods.chronicsyndrome) ChronicSyndrome_LaunchOutreachEvent (class in tlo.methods.chronicsyndrome) ChronicSyndrome_PopulationWideBehaviourChange (class in tlo.methods.chronicsyndrome) ChronicSyndromeDeathEvent (class in tlo.methods.chronicsyndrome) ChronicSyndromeEvent (class in tlo.methods.chronicsyndrome) ChronicSyndromeLoggingEvent (class in tlo.methods.chronicsyndrome) clear() (BitsetHandler method) clear_symptoms() (SymptomManager method) close() (StreamDisplay method) close_output_file() (Simulation method) colors_in_matplotlib() (in module tlo.analysis.utils) compare_number_of_deaths() (in module tlo.analysis.utils) compute_fraction_of_year_between_polling_event() (DiarrhoeaPollingEvent method) compute_initial_model_to_data_popsize_ratio() (Demography method) compute_mean_across_runs() (in module tlo.analysis.utils) compute_summary_statistics() (in module tlo.analysis.utils) consider_ipt_for_those_initiating_art() (Tb method) consider_tb() (HSI_Hiv_StartOrContinueTreatment method) ConstantRescalingHRCapabilities (class in tlo.methods.healthsystem) Contraception (class in tlo.methods.contraception) ContraceptionLoggingEvent (class in tlo.methods.contraception) ContraceptionPoll (class in tlo.methods.contraception) convert_excel_files_to_csv() (in module tlo.util) Copd (class in tlo.methods.copd) CopdDeath (class in tlo.methods.copd) CopdExacerbationEvent (class in tlo.methods.copd) CopdPollEvent (class in tlo.methods.copd) create_age_range_lookup() (in module tlo.util) create_directory() (in module tlo.cli) create_file_share() (in module tlo.cli) create_job() (in module tlo.cli) create_mappers_from_causes_of_death_to_label() (Demography method) create_pickles_locally() (in module tlo.analysis.utils) create_series() (Property method) create_table() (in module tlo.docs) critical() (Logger method) CUSTOM (LinearModelType attribute) custom() (LinearModel static method)

D

DATA_FRAME (Types attribute) DATE (Types attribute) date_of_next_event (EventQueue property) debug() (Logger method) decide_whether_hiv_test_for_infant() (Hiv method) decide_whether_hiv_test_for_mother() (Hiv method) decompose_yll_by_age_and_time() (HealthBurden method) default() (PandasEncoder method) define_linear_models() (HealthSeekingBehaviour method) define_symptoms() (Alri method) (Copd method) DelayedBirthEvent (class in tlo.test.random_birth) Demography (class in tlo.methods.demography) DemographyLoggingEvent (class in tlo.methods.demography) Depression (class in tlo.methods.depression) DepressionLoggingEvent (class in tlo.methods.depression) DepressionPollingEvent (class in tlo.methods.depression) DepressionSelfHarmEvent (class in tlo.methods.depression) DepressionSuicideEvent (class in tlo.methods.depression) description (ProgressBar property) determine_delivery_mode_in_spe_or_ec() (Labour method) determine_gestational_age_for_next_contact() (CareOfWomenDuringPregnancy method) determine_nature_of_the_case() (AlriIncidentCase method) determine_vl_status() (HSI_Hiv_StartOrContinueTreatment method) Deviance (class in tlo.methods.hiv_tb_calibration) df (BitsetHandler property) Diarrhoea (class in tlo.methods.diarrhoea) DiarrhoeaCheckPropertiesEvent (class in tlo.methods.diarrhoea) DiarrhoeaCureEvent (class in tlo.methods.diarrhoea) DiarrhoeaDeathEvent (class in tlo.methods.diarrhoea) DiarrhoeaIncidentCase (class in tlo.methods.diarrhoea) DiarrhoeaNaturalRecoveryEvent (class in tlo.methods.diarrhoea) DiarrhoeaPollingEvent (class in tlo.methods.diarrhoea) DiarrhoeaPropertiesOfOtherModules (class in tlo.methods.diarrhoea) DICT (Types attribute) did_not_run() (HSI_CardioMetabolicDisorders_Refill_Medication method) (HSI_CardioMetabolicDisorders_SeeksEmergencyCareAndGetsTreatment method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfAnaemia method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfGestationalDiabetes method) (HSI_CareOfWomenDuringPregnancy_AntenatalWardInpatientCare method) (HSI_CareOfWomenDuringPregnancy_EighthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FifthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FirstAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FourthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_PostAbortionCaseManagement method) (HSI_CareOfWomenDuringPregnancy_SecondAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SeventhAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SixthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_ThirdAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy method) (HSI_ChronicSyndrome_Outreach_Individual method) (HSI_ChronicSyndrome_SeeksEmergencyCareAndGetsTreatment method) (HSI_Depression_Refill_Antidepressant method) (HSI_Event method) (HSI_Labour_PostnatalWardInpatientCare method) (HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare method) (HSI_Labour_ReceivesPostnatalCheck method) (HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour method) (HSI_Malaria_Treatment method) (HSI_Malaria_Treatment_Complicated method) (HSI_MalariaIPTp method) (HSI_Measles_Treatment method) (HSI_Mockitis_PresentsForCareWithSevereSymptoms method) (HSI_Mockitis_StartTreatment method) (HSI_Mockitis_TreatmentMonitoring method) (HSI_NewbornOutcomes_NeonatalWardInpatientCare method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) (HSI_OtherAdultCancer_PalliativeCare method) (HSI_OtherAdultCancer_PostTreatmentCheck method) (HSI_OtherAdultCancer_StartTreatment method) (HSI_RTI_Acute_Pain_Management method) (HSI_RTI_Burn_Management method) (HSI_RTI_Fracture_Cast method) (HSI_RTI_Imaging_Event method) (HSI_RTI_Major_Surgeries method) (HSI_RTI_Medical_Intervention method) (HSI_RTI_Minor_Surgeries method) (HSI_RTI_Open_Fracture_Treatment method) (HSI_RTI_Shock_Treatment method) (HSI_RTI_Suture method) (HSI_RTI_Tetanus_Vaccine method) (HSI_Skeleton_Example_Interaction method)

DirectBirth (class in tlo.methods.contraception) disable() (in module tlo.logging) (in module tlo.logging.core) discontinue_switch_or_continue() (ContraceptionPoll method) DISEASE_MODULE (Metadata attribute) do_after_abortion() (PregnancySupervisor method) do_and_log_individual_contraception_change() (Contraception method) do_at_continuation() (HSI_Hiv_StartOrContinueTreatment method) do_at_generic_first_appt() (Alri method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (Copd method) (Depression method) (Diarrhoea method) (Hiv method) (Malaria method) (Measles method) (OesophagealCancer method) (OtherAdultCancer method) (ProstateCancer method) (RTI method) (Schisto method) (Stunting method) do_at_generic_first_appt_emergency() (Alri method) (CardioMetabolicDisorders method) (ChronicSyndrome method) (Copd method) (Depression method) (Epilepsy method) (HealthSeekingBehaviour method) (Labour method) (Malaria method) (Mockitis method) (PregnancySupervisor method) (RTI method) do_at_initiation() (HSI_Hiv_StartOrContinueTreatment method) do_birth() (Population method) (Simulation method) do_death() (Demography method) do_deliveries() (SimplifiedBirthsPoll method) do_effect_of_treatment() (Schisto method) do_effects_of_treatment_and_return_outcome() (Alri method) do_for_each_condition() (HSI_CardioMetabolicDisorders_Investigations method) do_for_each_event_to_be_investigated() (HSI_CardioMetabolicDisorders_SeeksEmergencyCareAndGetsTreatment method) do_logging() (Copd method) do_new_infection() (Hiv method) do_on_follow_up_following_treatment_failure() (HSI_Alri_Treatment method) do_on_presentation_to_care() (Depression method) do_onset() (Stunting method) do_progression() (Stunting method) do_recovery() (Stunting method) do_treatment() (Diarrhoea method) (Stunting method) do_when_hiv_diagnosed() (Hiv method) do_when_suspected_depression() (Depression method) draw_name() (BaseScenario method) draw_parameters() (BaseScenario method) DrawGenerator (class in tlo.scenario) DummyHivModule (class in tlo.methods.hiv) DummyTbModule (class in tlo.methods.tb) DynamicRescalingHRCapabilities (class in tlo.methods.healthsystem)

E

EarlyPregnancyLossDeathEvent (class in tlo.methods.pregnancy_supervisor) ectopic_pregnancy_treatment_doesnt_run() (CareOfWomenDuringPregnancy method) EctopicPregnancyEvent (class in tlo.methods.pregnancy_supervisor) EctopicPregnancyRuptureEvent (class in tlo.methods.pregnancy_supervisor) elapsed_time (ProgressBar property) element_repr() (BitsetHandler method) empty_blocks (ProgressBar property) end_episode() (Alri method) (Diarrhoea method) END_OF_DAY (Priority attribute) end_pregnancy() (Contraception method) end_treatment() (Tb method) EndOfPregnancyEvent (class in tlo.methods.contraception) enforce_priority_policy() (HealthSystem method)

Epi (class in tlo.methods.epi) Epilepsy (class in tlo.methods.epilepsy) EpilepsyEvent (class in tlo.methods.epilepsy) EpilepsyLoggingEvent (class in tlo.methods.epilepsy) EpiLoggingEvent (class in tlo.methods.epi) essential_newborn_care() (NewbornOutcomes method) est_remaining_time (ProgressBar property) eval() (NewbornOutcomes method) Event (class in tlo.events) EventQueue (class in tlo.simulation) extract_bases() (in module tlo.docs) extract_draw_names() (in module tlo.analysis.utils) extract_params() (in module tlo.analysis.utils) extract_results() (in module tlo.analysis.utils)

F

filled_blocks (ProgressBar property) finalise() (Simulation method) finalize() (IndividualProperties method) find_events_for_person() (HealthSystem method) (Simulation method) fire_single_event() (Simulation method) FIRST_HALF_OF_DAY (Priority attribute) flatten_multi_index_series_into_dict_for_logging() (in module tlo.analysis.utils) format_daily_capabilities() (HealthSystem method)

format_gbd() (in module tlo.analysis.utils) format_hsi_event_details_as_csv() (in module tlo.analysis.hsi_events) format_hsi_event_details_as_list() (in module tlo.analysis.hsi_events) format_hsi_event_details_as_table() (in module tlo.analysis.hsi_events) full_blood_count_testing() (CareOfWomenDuringPregnancy method) further_on_birth_care_of_women_in_pregnancy() (CareOfWomenDuringPregnancy method) further_on_birth_labour() (Labour method) further_on_birth_postnatal_supervisor() (PostnatalSupervisor method) further_on_birth_pregnancy_supervisor() (PregnancySupervisor method)

G

gdm_screening() (CareOfWomenDuringPregnancy method) gen_random_date_in_next_three_months() (CopdPollEvent method) general_population_rdt_scheduler() (Malaria method) generate_module_dict() (in module tlo.docs) GestationalDiabetesGlycaemicControlEvent (class in tlo.methods.pregnancy_supervisor) get() (BitsetHandler method) get_all_cause_mort_risk_per_poll() (OtherDeathPoll method) get_all_defined_hsi_events_as_dataframe() (in module tlo.analysis.hsi_events) get_all_dependencies() (in module tlo.dependencies) get_all_required_dependencies() (in module tlo.dependencies) get_and_store_labour_item_codes() (Labour method) get_and_store_newborn_item_codes() (NewbornOutcomes method) get_and_store_pregnancy_item_codes() (CareOfWomenDuringPregnancy method) get_approx_days_of_pregnancy() (CareOfWomenDuringPregnancy method) get_appt_footprint_as_time_request() (HealthSystem method) get_base_string() (in module tlo.docs) get_batch_client() (in module tlo.cli) get_beds_availability() (HealthSystem method) get_best_available_medicine() (Epilepsy method) get_blank_appt_footprint() (HealthSystem method) get_class_output_string() (in module tlo.docs) get_classes_in_module() (in module tlo.docs) get_coarse_appt_type() (in module tlo.analysis.utils) get_color_cause_of_death_or_daly_label() (in module tlo.analysis.utils) get_color_coarse_appt() (in module tlo.analysis.utils) get_color_short_treatment_id() (in module tlo.analysis.utils) get_column_name_for_symptom() (SymptomManager method) get_cons_availability() (HealthSystem method) get_consumables() (HSI_Event method) get_consumables_for_dx_and_tx() (Tb method) Get_Current_DALYS (class in tlo.methods.healthburden) get_daly_weight() (HealthBurden method) get_dalys() (HealthBurden method) get_dataframe_row_as_dict_for_logging() (in module tlo.logging.helpers) get_dependencies_and_initialise() (in module tlo.dependencies) get_details_of_defined_hsi_events() (in module tlo.analysis.hsi_events) get_draw() (DrawGenerator method) (SampleRunner method) get_drugs() (HSI_Hiv_StartOrContinueTreatment method) (HSI_Malaria_Treatment method) get_equip_availability() (HealthSystem method) get_facility_info() (HealthSystem method) get_filtered_treatment_ids() (in module tlo.analysis.utils) get_fully_qualified_name() (in module tlo.docs) get_generic_symptoms_dict() (SymptomManager_SpuriousSymptomOnset method)

get_grid() (in module tlo.analysis.utils) get_hsi_event_classes_per_module() (in module tlo.analysis.hsi_events) get_imci_classification_based_on_symptoms() (Alri static method) get_init_dependencies() (in module tlo.dependencies) get_item_code_for_each_contraceptive() (Contraception method) get_item_code_from_item_name() (HealthSystem method) get_item_codes() (Epi method) get_item_codes_from_package_name() (HealthSystem method) get_life_expectancy_estimates() (in module tlo.analysis.life_expectancy) get_link() (in module tlo.docs) get_log_config() (BaseScenario method) get_log_dataframes() (LogData method) get_mappers_in_fullmodel() (in module tlo.analysis.utils) get_missing_dependencies() (in module tlo.dependencies) get_mode_appt_constraints() (HealthSystem method) get_module_class_map() (in module tlo.dependencies) get_mort_risk_per_poll() (OtherDeathPoll method) get_package_name() (in module tlo.docs) get_parameters_for_hrh_historical_scaling_and_rescaling_for_mode2() (in module tlo.analysis.utils) get_parameters_for_improved_healthsystem_and_healthcare_seeking() (in module tlo.analysis.utils) get_parameters_for_standard_mode2_runs() (in module tlo.analysis.utils) get_parameters_for_status_quo() (in module tlo.analysis.utils) get_person_id_to_inherit_from() (in module tlo.util) get_persons_for_new_alri() (AlriPollingEvent method) get_persons_with_newly_onset_symptoms() (SymptomManager method) get_priority_policy_initial() (HealthSystem method) get_prob_death() (MeaslesOnsetEvent method) get_probability_of_premature_death() (in module tlo.analysis.life_expectancy) get_probs_of_acquiring_pathogen() (AlriPollingEvent method) get_proportion_of_deaths_to_represent_as_other_deaths() (OtherDeathPoll method) get_root_path() (in module tlo.analysis.utils) get_run_config() (DrawGenerator method) get_sample() (SampleRunner method) get_samples_for_draw() (SampleRunner method) get_scenario() (ScenarioLoader method) get_scenario_info() (in module tlo.analysis.utils) get_scenario_outputs() (in module tlo.analysis.utils) get_service_availability() (HealthSystem method) get_squeeze_factors() (HealthSystem method) get_time_from_aids_to_death() (Hiv method) get_time_from_infection_to_aids_distribution_parameters() (Hiv method) getLogger() (in module tlo.logging) (in module tlo.logging.core) GLYPHS (ProgressBar attribute) grouped_counts_with_all_combinations() (in module tlo.logging.helpers)

H

handlers (Logger property) has() (BitsetHandler method) has_all() (BitsetHandler method) has_any() (BitsetHandler method) has_what() (SymptomManager method) hash_dataframe() (in module tlo.util) HASH_LEN (Logger attribute) have_what() (SymptomManager method) HealthBurden (class in tlo.methods.healthburden) Healthburden_WriteToLog (class in tlo.methods.healthburden) HealthSeekingBehaviour (class in tlo.methods.healthseekingbehaviour) HealthSeekingBehaviourPoll (class in tlo.methods.healthseekingbehaviour) HealthSystem (class in tlo.methods.healthsystem) HealthSystemChangeMode (class in tlo.methods.healthsystem) HealthSystemChangeParameters (class in tlo.methods.healthsystem) HealthSystemLogger (class in tlo.methods.healthsystem) HealthSystemScheduler (class in tlo.methods.healthsystem) hep_b_testing() (CareOfWomenDuringPregnancy method) Hiv (class in tlo.methods.hiv) Hiv_DecisionToContinueOnPrEP (class in tlo.methods.hiv) Hiv_DecisionToContinueTreatment (class in tlo.methods.hiv) hiv_screening_for_at_risk_newborns() (NewbornOutcomes method) hiv_testing() (CareOfWomenDuringPregnancy method) HivAidsDeathEvent (class in tlo.methods.hiv) HivAidsOnsetEvent (class in tlo.methods.hiv) HivAidsTbDeathEvent (class in tlo.methods.hiv) HivCheckPropertiesEvent (class in tlo.methods.hiv) HivInfectionDuringBreastFeedingEvent (class in tlo.methods.hiv) HivInfectionEvent (class in tlo.methods.hiv) HivLoggingEvent (class in tlo.methods.hiv) HivRegularPollingEvent (class in tlo.methods.hiv) HivScaleUpEvent (class in tlo.methods.hiv) HpvScheduleEvent (class in tlo.methods.epi) HSI_Alri_Treatment (class in tlo.methods.alri) HSI_BcgVaccine (class in tlo.methods.epi) HSI_BladderCancer_Investigation_Following_Blood_Urine (class in tlo.methods.bladder_cancer) HSI_BladderCancer_Investigation_Following_pelvic_pain (class in tlo.methods.bladder_cancer) HSI_BladderCancer_PalliativeCare (class in tlo.methods.bladder_cancer) HSI_BladderCancer_PostTreatmentCheck (class in tlo.methods.bladder_cancer) HSI_BladderCancer_StartTreatment (class in tlo.methods.bladder_cancer) HSI_BreastCancer_Investigation_Following_breast_lump_discernible (class in tlo.methods.breast_cancer) HSI_BreastCancer_PalliativeCare (class in tlo.methods.breast_cancer) HSI_BreastCancer_PostTreatmentCheck (class in tlo.methods.breast_cancer) HSI_BreastCancer_StartTreatment (class in tlo.methods.breast_cancer) HSI_CardioMetabolicDisorders_CommunityTestingForHypertension (class in tlo.methods.cardio_metabolic_disorders) HSI_CardioMetabolicDisorders_Investigations (class in tlo.methods.cardio_metabolic_disorders) HSI_CardioMetabolicDisorders_Refill_Medication (class in tlo.methods.cardio_metabolic_disorders) HSI_CardioMetabolicDisorders_SeeksEmergencyCareAndGetsTreatment (class in tlo.methods.cardio_metabolic_disorders) HSI_CardioMetabolicDisorders_StartWeightLossAndMedication (class in tlo.methods.cardio_metabolic_disorders) HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfAnaemia (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfGestationalDiabetes (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_AntenatalWardInpatientCare (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_EighthAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_FifthAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_FirstAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_FocusedANCVisit (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_FourthAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_PostAbortionCaseManagement (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_PresentsForInductionOfLabour (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_SecondAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_SeventhAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_SixthAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_ThirdAntenatalCareContact (class in tlo.methods.care_of_women_during_pregnancy) HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy (class in tlo.methods.care_of_women_during_pregnancy) HSI_ChronicSyndrome_Outreach_Individual (class in tlo.methods.chronicsyndrome) HSI_ChronicSyndrome_SeeksEmergencyCareAndGetsTreatment (class in tlo.methods.chronicsyndrome) HSI_Contraception_FamilyPlanningAppt (class in tlo.methods.contraception) HSI_Copd_TreatmentOnSevereExacerbation (class in tlo.methods.copd) HSI_Depression_Refill_Antidepressant (class in tlo.methods.depression) HSI_Depression_Start_Antidepressant (class in tlo.methods.depression) HSI_Depression_TalkingTherapy (class in tlo.methods.depression) HSI_Diarrhoea_Treatment_Inpatient (class in tlo.methods.diarrhoea) HSI_Diarrhoea_Treatment_Outpatient (class in tlo.methods.diarrhoea) HSI_DtpHibHepVaccine (class in tlo.methods.epi)

HSI_EmergencyCare_SpuriousSymptom (class in tlo.methods.hsi_generic_first_appts) HSI_Epilepsy_Follow_Up (class in tlo.methods.epilepsy) HSI_Epilepsy_Start_Anti_Epileptic (class in tlo.methods.epilepsy) HSI_Event (class in tlo.methods.hsi_event) HSI_GenericEmergencyFirstAppt (class in tlo.methods.hsi_generic_first_appts) HSI_GenericNonEmergencyFirstAppt (class in tlo.methods.hsi_generic_first_appts) HSI_Hiv_Circ (class in tlo.methods.hiv) HSI_Hiv_EndOfLifeCare (class in tlo.methods.hiv) HSI_Hiv_StartInfantProphylaxis (class in tlo.methods.hiv) HSI_Hiv_StartOrContinueOnPrep (class in tlo.methods.hiv) HSI_Hiv_StartOrContinueTreatment (class in tlo.methods.hiv) HSI_Hiv_TestAndRefer (class in tlo.methods.hiv) HSI_HpvVaccine (class in tlo.methods.epi) HSI_Labour_PostnatalWardInpatientCare (class in tlo.methods.labour) HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare (class in tlo.methods.labour) HSI_Labour_ReceivesPostnatalCheck (class in tlo.methods.labour) HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour (class in tlo.methods.labour) HSI_Malaria_rdt (class in tlo.methods.malaria) HSI_Malaria_rdt_community (class in tlo.methods.malaria) HSI_Malaria_Treatment (class in tlo.methods.malaria) HSI_Malaria_Treatment_Complicated (class in tlo.methods.malaria) HSI_MalariaIPTp (class in tlo.methods.malaria) HSI_Measles_Treatment (class in tlo.methods.measles) HSI_MeaslesRubellaVaccine (class in tlo.methods.epi) HSI_Mockitis_PresentsForCareWithSevereSymptoms (class in tlo.methods.mockitis) HSI_Mockitis_StartTreatment (class in tlo.methods.mockitis) HSI_Mockitis_TreatmentMonitoring (class in tlo.methods.mockitis) HSI_NewbornOutcomes_NeonatalWardInpatientCare (class in tlo.methods.newborn_outcomes) HSI_NewbornOutcomes_ReceivesPostnatalCheck (class in tlo.methods.newborn_outcomes) HSI_OesophagealCancer_Investigation_Following_Dysphagia (class in tlo.methods.oesophagealcancer) HSI_OesophagealCancer_PalliativeCare (class in tlo.methods.oesophagealcancer) HSI_OesophagealCancer_PostTreatmentCheck (class in tlo.methods.oesophagealcancer) HSI_OesophagealCancer_StartTreatment (class in tlo.methods.oesophagealcancer) HSI_opv (class in tlo.methods.epi) HSI_OtherAdultCancer_Investigation_Following_early_other_adult_ca_symptom (class in tlo.methods.other_adult_cancers) HSI_OtherAdultCancer_PalliativeCare (class in tlo.methods.other_adult_cancers) HSI_OtherAdultCancer_PostTreatmentCheck (class in tlo.methods.other_adult_cancers) HSI_OtherAdultCancer_StartTreatment (class in tlo.methods.other_adult_cancers) HSI_PneumoVaccine (class in tlo.methods.epi) HSI_PostnatalSupervisor_TreatmentForObstetricFistula (class in tlo.methods.postnatal_supervisor) HSI_ProstateCancer_Investigation_Following_Pelvic_Pain (class in tlo.methods.prostate_cancer) HSI_ProstateCancer_Investigation_Following_psa_positive (class in tlo.methods.prostate_cancer) HSI_ProstateCancer_Investigation_Following_Urinary_Symptoms (class in tlo.methods.prostate_cancer) HSI_ProstateCancer_PalliativeCare (class in tlo.methods.prostate_cancer) HSI_ProstateCancer_PostTreatmentCheck (class in tlo.methods.prostate_cancer) HSI_ProstateCancer_StartTreatment (class in tlo.methods.prostate_cancer) HSI_RotaVaccine (class in tlo.methods.epi) HSI_RTI_Acute_Pain_Management (class in tlo.methods.rti) HSI_RTI_Burn_Management (class in tlo.methods.rti) HSI_RTI_Fracture_Cast (class in tlo.methods.rti) HSI_RTI_Imaging_Event (class in tlo.methods.rti) HSI_RTI_Major_Surgeries (class in tlo.methods.rti) HSI_RTI_Medical_Intervention (class in tlo.methods.rti) HSI_RTI_Minor_Surgeries (class in tlo.methods.rti) HSI_RTI_Open_Fracture_Treatment (class in tlo.methods.rti) HSI_RTI_Shock_Treatment (class in tlo.methods.rti) HSI_RTI_Suture (class in tlo.methods.rti) HSI_RTI_Tetanus_Vaccine (class in tlo.methods.rti) HSI_Schisto_MDA (class in tlo.methods.schisto) HSI_Schisto_TestingFollowingSymptoms (class in tlo.methods.schisto) HSI_Schisto_TreatmentFollowingDiagnosis (class in tlo.methods.schisto) HSI_Skeleton_Example_Interaction (class in tlo.methods.skeleton) HSI_Stunting_ComplementaryFeeding (class in tlo.methods.stunting) HSI_Tb_ClinicalDiagnosis (class in tlo.methods.tb) HSI_Tb_Culture (class in tlo.methods.tb) HSI_Tb_EndOfLifeCare (class in tlo.methods.tb) HSI_Tb_FollowUp (class in tlo.methods.tb) HSI_Tb_ScreeningAndRefer (class in tlo.methods.tb) HSI_Tb_Start_or_Continue_Ipt (class in tlo.methods.tb) HSI_Tb_StartTreatment (class in tlo.methods.tb) HSI_Tb_Xray_level1b (class in tlo.methods.tb) HSI_Tb_Xray_level2 (class in tlo.methods.tb) HSI_TdVaccine (class in tlo.methods.epi) HsiBaseVaccine (class in tlo.methods.epi) HSIEventWrapper (class in tlo.methods.hsi_event)

I

ImprovedHealthSystemAndCareSeekingScenarioSwitcher (class in tlo.methods.scenario_switcher) InconsistentLoggedColumnsWarning increment_category() (CopdPollEvent static method) increment_dose() (Epi method) individual_properties() (Population method) IndividualProperties (class in tlo.population) IndividualScopeEventMixin (class in tlo.events) induction_care_seeking_and_still_birth_risk() (PregnancySupervisor method) info() (Logger method) INIT_DEPENDENCIES (Module attribute) initial_size (Population attribute) initialise() (HSI_Event method) (in module tlo.logging) (in module tlo.logging.core) (Simulation method) initialise_baseline_art() (Hiv method) initialise_baseline_prevalence() (Hiv method) initialise_baseline_tested() (Hiv method) initialise_missing_dependencies() (in module tlo.dependencies) initialise_population() (Alri method) (AlriPropertiesOfOtherModules method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (CareOfWomenDuringPregnancy method) (ChronicSyndrome method) (Contraception method) (Copd method) (Demography method) (Depression method) (Deviance method) (Diarrhoea method) (DiarrhoeaPropertiesOfOtherModules method) (DummyHivModule method) (DummyTbModule method) (Epi method) (Epilepsy method) (HealthBurden method) (HealthSeekingBehaviour method) (HealthSystem method) (Hiv method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (Labour method) (Lifestyle method) (Malaria method) (Measles method) (Mockitis method) (Module method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RandomBirth method) (RandomDeath method) (RTI method) (Schisto method) (SimplifiedBirths method) (SimplifiedPregnancyAndLabour method) (Skeleton method) (Stunting method) (StuntingPropertiesOfOtherModules method) (SymptomManager method) (Tb method) (Wasting method)

initialise_simulation() (Alri method) (AlriPropertiesOfOtherModules method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (CareOfWomenDuringPregnancy method) (ChronicSyndrome method) (Contraception method) (Copd method) (Demography method) (Depression method) (Deviance method) (Diarrhoea method) (DiarrhoeaPropertiesOfOtherModules method) (DummyHivModule method) (DummyTbModule method) (Epi method) (Epilepsy method) (HealthBurden method) (HealthSeekingBehaviour method) (HealthSystem method) (Hiv method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (Labour method) (Lifestyle method) (Malaria method) (Measles method) (Mockitis method) (Module method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RandomBirth method) (RandomDeath method) (RTI method) (Schisto method) (SimplifiedBirths method) (SimplifiedPregnancyAndLabour method) (Skeleton method) (Stunting method) (StuntingPropertiesOfOtherModules method) (SymptomManager method) (Tb method) (Wasting method) initiate() (ContraceptionPoll method) initiate_maintenance_anti_hypertensive_treatment() (CareOfWomenDuringPregnancy method) initiate_treatment_for_severe_hypertension() (CareOfWomenDuringPregnancy method) insecticide_treated_bed_net() (CareOfWomenDuringPregnancy method) InstantaneousDeath (class in tlo.methods.demography) INT (Types attribute) intercept (LinearModel property) interventions_delivered_each_visit_from_anc2() (CareOfWomenDuringPregnancy method) interventions_delivered_pre_discharge() (Labour method) iptp_administration() (CareOfWomenDuringPregnancy method) iron_and_folic_acid_supplementation() (CareOfWomenDuringPregnancy method) is_all_beddays_allocated() (HSI_Event method) is_empty() (BitsetHandler method) is_file_clean() (in module tlo.cli) is_treatment_id_allowed() (HealthSystem static method) is_valid_hsi_event_subclass() (in module tlo.analysis.hsi_events) is_valid_tlo_module_subclass() (in module tlo.dependencies) isEnabledFor() (Logger method) items() (LogsDict method) iter_rate (ProgressBar property)

K

kangaroo_mother_care() (NewbornOutcomes method)

keys() (LogsDict method)

L

Labour (class in tlo.methods.labour) labour_characteristics_checker() (Labour method) LabourAndPostnatalCareAnalysisEvent (class in tlo.methods.labour) LabourAtHomeEvent (class in tlo.methods.labour) LabourDeathAndStillBirthEvent (class in tlo.methods.labour) LabourLoggingEvent (class in tlo.methods.labour) LabourOnsetEvent (class in tlo.methods.labour) LAST_HALF_OF_DAY (Priority attribute) level (Logger property) Lifestyle (class in tlo.methods.enhanced_lifestyle) LifestyleEvent (class in tlo.methods.enhanced_lifestyle) LifestylesLoggingEvent (class in tlo.methods.enhanced_lifestyle) LinearModel (class in tlo.lm) LinearModelType (class in tlo.lm) link_twins() (NewbornOutcomes method) LIST (Types attribute) lm_type (LinearModel property) load_config() (in module tlo.cli) load_from_pickle() (Simulation static method)

load_parameters_from_dataframe() (Module method) load_pickled_dataframes() (in module tlo.analysis.utils) load_priority_policy() (HealthSystem method) load_scenario() (in module tlo.cli) load_server_config() (in module tlo.cli) log() (Logger method) log_configuration() (BaseScenario method) log_current_capabilities_and_usage() (HealthSystem method) log_filepath (Simulation property) log_number_of_staff() (HealthSystemLogger method) LogData (class in tlo.logging.reader) Logger (class in tlo.logging.core) LOGISTIC (LinearModelType attribute) LogsDict (class in tlo.analysis.utils) look_up_consumable_item_codes() (RTI method) (Stunting method) look_up_consumables() (Alri method) (Diarrhoea method) lookup_item_codes() (Copd method) low_bias_32() (SampleRunner static method)

M

main() (in module tlo.analysis.hsi_events) make_age_grp_lookup() (in module tlo.analysis.utils) make_age_grp_types() (in module tlo.analysis.utils) make_appt_footprint() (HSI_Event method) make_beddays_footprint() (HSI_Event method) make_calendar_period_lookup() (in module tlo.analysis.utils) make_calendar_period_type() (in module tlo.analysis.utils) make_cartesian_parameter_grid() (in module tlo.scenario) make_initial_population() (Simulation method) make_test_property() (Population method) Malaria (class in tlo.methods.malaria) malaria_poll2() (Malaria method) MalariaDeathEvent (class in tlo.methods.malaria) MalariaEndIPTpProtection (class in tlo.methods.malaria) MalariaIPTp (class in tlo.methods.malaria) MalariaLoggingEvent (class in tlo.methods.malaria) MalariaParasiteClearanceEvent (class in tlo.methods.malaria) MalariaPollingEventDistrict (class in tlo.methods.malaria) MalariaPrevDistrictLoggingEvent (class in tlo.methods.malaria) MalariaScaleUpEvent (class in tlo.methods.malaria) MalariaTxLoggingEvent (class in tlo.methods.malaria) MalariaUpdateEvent (class in tlo.methods.malaria) Measles (class in tlo.methods.measles) MeaslesDeathEvent (class in tlo.methods.measles) MeaslesEvent (class in tlo.methods.measles) MeaslesLoggingAnnualEvent (class in tlo.methods.measles) MeaslesLoggingEvent (class in tlo.methods.measles) MeaslesLoggingFortnightEvent (class in tlo.methods.measles) MeaslesOnsetEvent (class in tlo.methods.measles) MeaslesSymptomResolveEvent (class in tlo.methods.measles) merge_hsi_event_details() (in module tlo.analysis.hsi_events) merge_log_files() (in module tlo.analysis.utils) Metadata (class in tlo.methods) METADATA (Module attribute) mix_scenarios() (in module tlo.analysis.utils) Mockitis (class in tlo.methods.mockitis) MockitisDeathEvent (class in tlo.methods.mockitis) MockitisEvent (class in tlo.methods.mockitis) MockitisLoggingEvent (class in tlo.methods.mockitis) module tlo tlo.analysis tlo.analysis.hsi_events tlo.analysis.life_expectancy tlo.analysis.utils tlo.cli tlo.core tlo.dependencies tlo.docs tlo.events tlo.lm tlo.logging tlo.logging.core tlo.logging.encoding tlo.logging.helpers tlo.logging.reader tlo.methods tlo.methods.alri tlo.methods.bed_days tlo.methods.bladder_cancer tlo.methods.breast_cancer tlo.methods.cancer_consumables tlo.methods.cardio_metabolic_disorders tlo.methods.care_of_women_during_pregnancy tlo.methods.causes tlo.methods.chronicsyndrome tlo.methods.consumables tlo.methods.contraception tlo.methods.copd tlo.methods.demography tlo.methods.depression tlo.methods.diarrhoea tlo.methods.dxmanager tlo.methods.enhanced_lifestyle tlo.methods.epi tlo.methods.epilepsy tlo.methods.equipment tlo.methods.fullmodel tlo.methods.healthburden tlo.methods.healthseekingbehaviour tlo.methods.healthsystem tlo.methods.hiv tlo.methods.hiv_tb_calibration tlo.methods.hsi_event tlo.methods.hsi_generic_first_appts tlo.methods.labour tlo.methods.labour_lm tlo.methods.malaria tlo.methods.measles tlo.methods.mockitis tlo.methods.newborn_outcomes tlo.methods.newborn_outcomes_lm tlo.methods.oesophagealcancer tlo.methods.other_adult_cancers tlo.methods.postnatal_supervisor tlo.methods.postnatal_supervisor_lm tlo.methods.pregnancy_helper_functions tlo.methods.pregnancy_supervisor tlo.methods.pregnancy_supervisor_lm tlo.methods.prostate_cancer tlo.methods.rti tlo.methods.scenario_switcher tlo.methods.schisto tlo.methods.simplified_births tlo.methods.skeleton tlo.methods.stunting tlo.methods.symptommanager tlo.methods.tb tlo.methods.wasting tlo.population tlo.progressbar tlo.scenario tlo.simulation tlo.test tlo.test.random_birth tlo.test.random_death tlo.util

Module (class in tlo.core) ModuleDependencyError modules() (BaseScenario method) mtct_during_breastfeeding() (Hiv method) MultipleModuleInstanceError MULTIPLICATIVE (LinearModelType attribute) multiplicative() (LinearModel static method)

N

n_block_empty (ProgressBar property) n_block_filled (ProgressBar property) n_step (ProgressBar property) never_ran() (HSI_Alri_Treatment method) (HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy method) (HSI_Contraception_FamilyPlanningAppt method) (HSI_Event method) (HSI_Hiv_StartInfantProphylaxis method) (HSI_Hiv_StartOrContinueOnPrep method) (HSI_Hiv_StartOrContinueTreatment method) (HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare method) (HSI_Labour_ReceivesPostnatalCheck method) (HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) (HSI_Skeleton_Example_Interaction method) new_case() (AlriLoggingEvent method) new_cured_case() (AlriLoggingEvent method) new_death() (AlriLoggingEvent method) new_hypoxaemic_case() (AlriLoggingEvent method) new_pulmonary_complication_case() (AlriLoggingEvent method) new_recovered_case() (AlriLoggingEvent method) new_row (Population attribute) new_rows (Population attribute) new_seeking_care() (AlriLoggingEvent method)

new_systemic_complication_case() (AlriLoggingEvent method) new_treated() (AlriLoggingEvent method) NewbornOutcomes (class in tlo.methods.newborn_outcomes) next_person_id (Population attribute) not_available() (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfAnaemia method) (HSI_CareOfWomenDuringPregnancy_AntenatalOutpatientManagementOfGestationalDiabetes method) (HSI_CareOfWomenDuringPregnancy_AntenatalWardInpatientCare method) (HSI_CareOfWomenDuringPregnancy_EighthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FifthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FirstAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_FourthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_PostAbortionCaseManagement method) (HSI_CareOfWomenDuringPregnancy_SecondAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SeventhAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_SixthAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_ThirdAntenatalCareContact method) (HSI_CareOfWomenDuringPregnancy_TreatmentForEctopicPregnancy method) (HSI_Labour_PostnatalWardInpatientCare method) (HSI_Labour_ReceivesComprehensiveEmergencyObstetricCare method) (HSI_Labour_ReceivesPostnatalCheck method) (HSI_Labour_ReceivesSkilledBirthAttendanceDuringLabour method) (HSI_NewbornOutcomes_NeonatalWardInpatientCare method) (HSI_NewbornOutcomes_ReceivesPostnatalCheck method) not_empty() (BitsetHandler method) number_of_draws (SampleRunner property)

O

OesCancerLoggingEvent (class in tlo.methods.oesophagealcancer) OesCancerMainPollingEvent (class in tlo.methods.oesophagealcancer) OesophagealCancer (class in tlo.methods.oesophagealcancer) on_birth() (Alri method) (AlriPropertiesOfOtherModules method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (CareOfWomenDuringPregnancy method) (ChronicSyndrome method) (Contraception method) (Copd method) (Demography method) (Depression method) (Deviance method) (Diarrhoea method) (DiarrhoeaPropertiesOfOtherModules method) (DummyHivModule method) (DummyTbModule method) (Epi method) (Epilepsy method) (HealthBurden method) (HealthSeekingBehaviour method) (HealthSystem method) (Hiv method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (Labour method) (Lifestyle method) (Malaria method) (Measles method) (Mockitis method) (Module method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RandomBirth method) (RandomDeath method) (RTI method) (Schisto method) (SimplifiedBirths method) (SimplifiedPregnancyAndLabour method) (Skeleton method) (Stunting method) (StuntingPropertiesOfOtherModules method) (SymptomManager method) (Tb method) (Wasting method)

on_end_of_day() (HealthSystem method) on_end_of_month() (HealthSystem method) on_end_of_year() (HealthSystem method) on_hsi_alert() (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (CareOfWomenDuringPregnancy method) (ChronicSyndrome method) (Depression method) (Diarrhoea method) (Labour method) (Mockitis method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RTI method) (Skeleton method) on_simulation_end() (Contraception method) (Deviance method) (HealthBurden method) (HealthSystem method) (Module method) OPTIONAL_INIT_DEPENDENCIES (Module attribute) order_of_cause_of_death_or_daly_label() (in module tlo.analysis.utils) order_of_coarse_appt() (in module tlo.analysis.utils) order_of_short_treatment_ids() (in module tlo.analysis.utils) OtherAdultCancer (class in tlo.methods.other_adult_cancers) OtherAdultCancerLoggingEvent (class in tlo.methods.other_adult_cancers) OtherAdultCancerMainPollingEvent (class in tlo.methods.other_adult_cancers) OtherDeathPoll (class in tlo.methods.demography) otherwise() (Predictor method) over_ride_availability_of_certain_consumables() (Alri method) override_availability_of_consumables() (HealthSystem method) override_parameters() (SampleRunner static method)

P

pandas_type (Specifiable property) PANDAS_TYPE_DEFAULT_VALUE_MAP (Property attribute) PANDAS_TYPE_MAP (Specifiable attribute) PandasEncoder (class in tlo.logging.encoding) Parameter (class in tlo.core) PARAMETERS (Module attribute) parameters (Module attribute) PARAMETERS (RandomBirth attribute) parameters (RandomBirth attribute) PARAMETERS (RandomDeath attribute) parameters (RandomDeath attribute) ParameterUpdateEvent (class in tlo.methods.pregnancy_supervisor) parse_arguments() (BaseScenario method) parse_csv_values_for_columns_with_mixed_datatypes() (in module tlo.util) parse_log_file() (in module tlo.analysis.utils) parse_log_line() (LogData method) parse_logged_dataframe() (LogData method) partial_block (ProgressBar property) per_capita_testing_rate() (Hiv method) perc_complete (ProgressBar property) plot_clustered_stacked() (in module tlo.analysis.utils) plot_stacked_bar_chart() (in module tlo.analysis.utils) point_of_care_hb_testing() (CareOfWomenDuringPregnancy method) pop_next_event_and_date() (EventQueue method) Population (class in tlo.population) PopulationScopeEventMixin (class in tlo.events) post_apply_hook() (Event method) (HSI_Contraception_FamilyPlanningAppt method) (HSI_Event method) (RegularEvent method) postfix (ProgressBar property) PostnatalSupervisor (class in tlo.methods.postnatal_supervisor) PostnatalSupervisorEvent (class in tlo.methods.postnatal_supervisor) PostnatalWeekOneMaternalEvent (class in tlo.methods.postnatal_supervisor) PostnatalWeekOneNeonatalEvent (class in tlo.methods.postnatal_supervisor) postpartum_characteristics_checker() (Labour method) pre_initialise_population() (Alri method) (Contraception method) (Copd method) (Demography method) (HealthSystem method) (Hiv method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (Lifestyle method) (Malaria method) (Measles method) (Module method) (Schisto method) (SymptomManager method) (Tb method)

predict() (Labour method) (LinearModel method) Predictor (class in tlo.lm) predictors (LinearModel property) prefix (ProgressBar property) pregnancy_for_those_not_on_contraceptive() (ContraceptionPoll method) pregnancy_for_those_on_contraceptive() (ContraceptionPoll method) pregnancy_supervisor_property_reset() (PregnancySupervisor method) PregnancyAnalysisEvent (class in tlo.methods.pregnancy_supervisor) PregnancyLoggingEvent (class in tlo.methods.pregnancy_supervisor) PregnancySupervisor (class in tlo.methods.pregnancy_supervisor) PregnancySupervisorEvent (class in tlo.methods.pregnancy_supervisor) print_basic_job_details() (in module tlo.cli) print_batch_exception() (in module tlo.cli) Priority (class in tlo.events) prob_art_start_after_test() (Hiv method) prob_viral_suppression() (Hiv method) probability_all_equipment_available() (HSI_Event method) process_causes_of_dalys() (HealthBurden method) process_causes_of_death() (Demography method) process_causes_of_disability() (HealthBurden method) process_events_mode_0_and_1() (HealthSystemScheduler method) process_events_mode_2() (HealthSystemScheduler method) process_healthsystem_organisation_files() (HealthSystem method) process_parameters() (Measles method) process_params() (Contraception method) progress_bar (ProgressBar property) progress_to_next_lung_function() (CopdPollEvent method) ProgressBar (class in tlo.progressbar) progression_of_hypertensive_disorders() (Labour method) prop_complete (ProgressBar property) prop_partial_block (ProgressBar property) PROPERTIES (Module attribute) (RandomBirth attribute) (RandomDeath attribute) Property (class in tlo.core) prophylactic_labour_interventions() (Labour method) props (Population attribute) ProstateCancer (class in tlo.methods.prostate_cancer) ProstateCancerLoggingEvent (class in tlo.methods.prostate_cancer) ProstateCancerMainPollingEvent (class in tlo.methods.prostate_cancer) python_type (Specifiable property) PYTHON_TYPE_MAP (Specifiable attribute)

R

random_date() (in module tlo.util) RandomBirth (class in tlo.test.random_birth) RandomDeath (class in tlo.test.random_death) RandomDeathEvent (class in tlo.test.random_death) RandomPregnancyEvent (class in tlo.test.random_birth) read_csv_files() (in module tlo.util) read_data_files() (Deviance method) read_model_outputs() (Deviance method) read_parameters() (Alri method) (AlriPropertiesOfOtherModules method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (CareOfWomenDuringPregnancy method) (ChronicSyndrome method) (Contraception method) (Copd method) (Demography method) (Depression method) (Deviance method) (Diarrhoea method) (DiarrhoeaPropertiesOfOtherModules method) (DummyHivModule method) (DummyTbModule method) (Epi method) (Epilepsy method) (HealthBurden method) (HealthSeekingBehaviour method) (HealthSystem method) (Hiv method) (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method) (Labour method) (Lifestyle method) (Malaria method) (Measles method) (Mockitis method) (Module method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RandomBirth method) (RandomDeath method) (RTI method) (Schisto method) (SimplifiedBirths method) (SimplifiedPregnancyAndLabour method) (Skeleton method) (Stunting method) (StuntingPropertiesOfOtherModules method) (SymptomManager method) (Tb method) (Wasting method) REAL (Types attribute) record_death() (Deviance method) record_hsi_event() (HealthSystem method) record_sought_care_for_alri() (Alri method) refresh() (ProgressBar method) register() (Simulation method) register_generic_symptoms() (SymptomManager method) register_symptom() (SymptomManager method) RegularEvent (class in tlo.events) relapse_event() (Tb method) remove_beddays_footprint() (HealthSystem method) report_daly_values() (Alri method) (BladderCancer method) (BreastCancer method) (CardioMetabolicDisorders method) (ChronicSyndrome method) (Copd method) (Depression method) (Diarrhoea method) (Epi method) (Epilepsy method) (Hiv method) (Labour method) (Malaria method) (Measles method) (Mockitis method) (NewbornOutcomes method) (OesophagealCancer method) (OtherAdultCancer method) (PostnatalSupervisor method) (PregnancySupervisor method) (ProstateCancer method) (RTI method) (Schisto method) (Skeleton method) (Tb method)

report_live_years_lost() (HealthBurden method) RescaleHRCapabilities_ByDistrict (class in tlo.methods.healthsystem) reschedule() (HSI_Contraception_FamilyPlanningAppt method) reset() (in module tlo.logging) (in module tlo.logging.core) (ProgressBar method) reset_attributes() (Logger method) reset_due_date() (Labour method) reset_persons_with_newly_onset_symptoms() (SymptomManager method) reset_queue() (HealthSystem method) RTI (class in tlo.methods.rti) rti_acute_pain_management() (RTI method) rti_alter_daly_post_treatment() (RTI method) rti_ask_for_burn_treatment() (RTI method) rti_ask_for_fracture_casts() (RTI method) rti_ask_for_open_fracture_treatment() (RTI method) rti_ask_for_shock_treatment() (RTI method) rti_ask_for_suture_kit() (RTI method) rti_ask_for_tetanus() (RTI method) rti_assign_daly_weights() (RTI method) rti_assign_injuries() (RTI method) RTI_Check_Death_No_Med (class in tlo.methods.rti) rti_determine_LOS() (RTI method) rti_do_for_major_surgeries() (RTI method) rti_do_for_minor_surgeries() (RTI method) rti_do_when_diagnosed() (RTI method) rti_find_all_columns_of_treated_injuries() (RTI method) rti_find_and_count_injuries() (RTI static method) rti_find_injury_column() (RTI method) rti_injury_diagnosis() (RTI method) RTI_Logging_Event (class in tlo.methods.rti) RTI_Medical_Intervention_Death_Event (class in tlo.methods.rti) RTI_No_Lifesaving_Medical_Intervention_Death_Event (class in tlo.methods.rti) RTI_Recovery_Event (class in tlo.methods.rti) rti_swap_injury_daly_upon_treatment() (RTI method) rti_treated_injuries() (RTI method) RTIPollingEvent (class in tlo.methods.rti) run() (Event method) (HSI_Event method) (HSIEventWrapper method) (SampleRunner method) run_if_care_of_the_receives_postnatal_check_cant_run() (NewbornOutcomes method) run_if_receives_comprehensive_emergency_obstetric_care_cant_run() (Labour method) run_if_receives_postnatal_check_cant_run() (Labour method) run_if_receives_skilled_birth_attendance_cant_run() (Labour method) run_individual_level_events_in_mode_0_or_1() (HealthSystem method) run_sample_by_number() (SampleRunner method) run_simulation_to() (Simulation method) runs_per_draw (SampleRunner property)

S

sample_outcome() (in module tlo.util) sample_time_from_infection_to_aids_given_parameters() (Hiv method) SampleRunner (class in tlo.scenario) save_config() (DrawGenerator static method) save_draws() (BaseScenario method) save_to_pickle() (Simulation method) ScenarioLoader (class in tlo.scenario) ScenarioSwitchEvent (class in tlo.methods.scenario_switcher) schedule() (EventQueue method) schedule_admission() (CareOfWomenDuringPregnancy method) schedule_anc_one() (PregnancySupervisor method) schedule_batch_of_contraceptive_changes() (Contraception method) schedule_batch_of_individual_hsi_events() (HealthSystem method) schedule_births_for_first_9_months() (Contraception method) schedule_event() (Simulation method) schedule_first_anc_contact_for_new_pregnancy() (PregnancySupervisor method) schedule_hsi_event() (HealthSystem method) schedule_hsi_event_for_tomorrow() (RTI method) schedule_pnc() (NewbornOutcomes method) schedule_symptom_resolve() (SymptomManager_SpuriousSymptomResolve method) schedule_to_call_never_ran_on_date() (HealthSystem method) scheduled_week_one_postnatal_event() (NewbornOutcomes method) Schisto (class in tlo.methods.schisto) SchistoInfectionWormBurdenEvent (class in tlo.methods.schisto) SchistoLoggingEvent (class in tlo.methods.schisto) SchistoMatureWorms (class in tlo.methods.schisto) SchistoMDAEvent (class in tlo.methods.schisto) SchistoWormsNatDeath (class in tlo.methods.schisto) screening_interventions_delivered_at_every_contact() (CareOfWomenDuringPregnancy method) select_contraceptive_following_birth() (Contraception method) select_tb_test() (Tb method) select_treatment() (HSI_Tb_StartTreatment method) send_for_screening_general() (Tb method) SERIES (Types attribute) set() (BitsetHandler method) set_date_of_labour() (Labour method) (SimplifiedPregnancyAndLabour method) set_death_status() (NewbornOutcomes method) set_disability_status() (NewbornOutcomes method) set_intrapartum_complications() (Labour method) set_logging_levels() (in module tlo.logging) (in module tlo.logging.helpers) set_new_pregnancies() (SimplifiedBirthsPoll method) set_new_pregnancy() (ContraceptionPoll method) set_output_file() (in module tlo.logging) (in module tlo.logging.core)

set_postnatal_complications_mothers() (PostnatalSupervisor method) set_postnatal_complications_neonates() (PostnatalSupervisor method) set_postpartum_complications() (Labour method) setLevel() (Logger method) setup_daily_capabilities() (HealthSystem method) setup_draws() (DrawGenerator method) setup_priority_policy() (HealthSystem method) SimplifiedBirths (class in tlo.methods.simplified_births) SimplifiedBirthsPoll (class in tlo.methods.simplified_births) SimplifiedPregnancyAndLabour (class in tlo.methods.contraception) simulate() (Simulation method) Simulation (class in tlo.simulation) SimulationNotInitialisedError SimulationPreviouslyInitialisedError Skeleton (class in tlo.methods.skeleton) Skeleton_Event (class in tlo.methods.skeleton) Skeleton_LoggingEvent (class in tlo.methods.skeleton) sort_hsi_event_details() (in module tlo.analysis.hsi_events) Specifiable (class in tlo.core) squarify_neat() (in module tlo.analysis.utils) start() (ProgressBar method) START_OF_DAY (Priority attribute) StartInterventions (class in tlo.methods.contraception) stats (ProgressBar property) step (ProgressBar property) stop() (ProgressBar method) stop_antiep() (Epilepsy method) stops_treatment() (Hiv method) str_to_pandas_date() (in module tlo.util) StreamDisplay (class in tlo.progressbar) STRING (Types attribute) Stunting (class in tlo.methods.stunting) StuntingLoggingEvent (class in tlo.methods.stunting) StuntingPollingEvent (class in tlo.methods.stunting) StuntingPropertiesOfOtherModules (class in tlo.methods.stunting) summarize() (in module tlo.analysis.utils) surgical_management_of_pph() (Labour method) SymptomManager (class in tlo.methods.symptommanager) SymptomManager_AutoOnsetEvent (class in tlo.methods.symptommanager) SymptomManager_AutoResolveEvent (class in tlo.methods.symptommanager) SymptomManager_SpuriousSymptomOnset (class in tlo.methods.symptommanager) SymptomManager_SpuriousSymptomResolve (class in tlo.methods.symptommanager) synchronize_updates_to_dataframe() (IndividualProperties method) syphilis_screening_and_treatment() (CareOfWomenDuringPregnancy method) SyphilisInPregnancyEvent (class in tlo.methods.pregnancy_supervisor)

T

Tb (class in tlo.methods.tb) Tb_DecisionToContinueIPT (class in tlo.methods.tb) tb_screening() (CareOfWomenDuringPregnancy method) TbActiveCasePoll (class in tlo.methods.tb) TbActiveEvent (class in tlo.methods.tb) TbCheckPropertiesEvent (class in tlo.methods.tb) TbDeathEvent (class in tlo.methods.tb) TbDecideDeathEvent (class in tlo.methods.tb) TbLoggingEvent (class in tlo.methods.tb) TbRegularEvents (class in tlo.methods.tb) TbScaleUpEvent (class in tlo.methods.tb) TbSelfCureEvent (class in tlo.methods.tb) tetanus_vaccination() (CareOfWomenDuringPregnancy method) tlo module tlo.analysis module tlo.analysis.hsi_events module tlo.analysis.life_expectancy module tlo.analysis.utils module tlo.cli module tlo.core module tlo.dependencies module tlo.docs module tlo.events module tlo.lm module tlo.logging module tlo.logging.core module tlo.logging.encoding module tlo.logging.helpers module tlo.logging.reader module tlo.methods module tlo.methods.alri module tlo.methods.bed_days module tlo.methods.bladder_cancer module tlo.methods.breast_cancer module tlo.methods.cancer_consumables module tlo.methods.cardio_metabolic_disorders module tlo.methods.care_of_women_during_pregnancy module tlo.methods.causes module tlo.methods.chronicsyndrome module tlo.methods.consumables module tlo.methods.contraception module tlo.methods.copd module tlo.methods.demography module tlo.methods.depression module tlo.methods.diarrhoea module tlo.methods.dxmanager module tlo.methods.enhanced_lifestyle module tlo.methods.epi module tlo.methods.epilepsy module tlo.methods.equipment module tlo.methods.fullmodel module tlo.methods.healthburden module

tlo.methods.healthseekingbehaviour module tlo.methods.healthsystem module tlo.methods.hiv module tlo.methods.hiv_tb_calibration module tlo.methods.hsi_event module tlo.methods.hsi_generic_first_appts module tlo.methods.labour module tlo.methods.labour_lm module tlo.methods.malaria module tlo.methods.measles module tlo.methods.mockitis module tlo.methods.newborn_outcomes module tlo.methods.newborn_outcomes_lm module tlo.methods.oesophagealcancer module tlo.methods.other_adult_cancers module tlo.methods.postnatal_supervisor module tlo.methods.postnatal_supervisor_lm module tlo.methods.pregnancy_helper_functions module tlo.methods.pregnancy_supervisor module tlo.methods.pregnancy_supervisor_lm module tlo.methods.prostate_cancer module tlo.methods.rti module tlo.methods.scenario_switcher module tlo.methods.schisto module tlo.methods.simplified_births module tlo.methods.skeleton module tlo.methods.stunting module tlo.methods.symptommanager module tlo.methods.tb module tlo.methods.wasting module tlo.population module tlo.progressbar module tlo.scenario module tlo.simulation module tlo.test module tlo.test.random_birth module tlo.test.random_death module tlo.util module to_age_group() (in module tlo.analysis.utils) to_strings() (BitsetHandler method) topologically_sort_modules() (in module tlo.dependencies) transition_seizure_stat() (Epilepsy method) transition_states() (in module tlo.util) treatment_for_severe_pre_eclampsia_or_eclampsia() (CareOfWomenDuringPregnancy method) treatment_id() (HSI_BcgVaccine method) (HSI_DtpHibHepVaccine method) (HSI_HpvVaccine method) (HSI_MeaslesRubellaVaccine method) (HSI_opv method) (HSI_PneumoVaccine method) (HSI_RotaVaccine method) (HSI_TdVaccine method) (HsiBaseVaccine method) Types (class in tlo.core)

U

uncompress() (BitsetHandler method) unflatten_flattened_multi_index_in_logging() (in module tlo.analysis.utils) unset() (BitsetHandler method) update() (AnsiStreamDisplay method) (BasicStreamDisplay method) (ProgressBar method) (StreamDisplay method) update_breastfed_status() (SimplifiedBirthsPoll method) update_consumables_availability_to_represent_merging_of_levels_1b_and_2() (HealthSystem method) update_contraceptive() (ContraceptionPoll method) update_parameters() (ImprovedHealthSystemAndCareSeekingScenarioSwitcher method)

update_parameters_for_program_scaleup() (Hiv method) (Malaria method) (Tb method) update_params_for_interventions() (Contraception method) update_pregnancy() (ContraceptionPoll method) update_risk_score() (CardioMetabolicDisorders method) update_variables_post_still_birth_for_data_frame() (PregnancySupervisor method) update_variables_post_still_birth_for_individual() (PregnancySupervisor method) upload_local_file() (in module tlo.cli) USES_HEALTHBURDEN (Metadata attribute) USES_HEALTHSYSTEM (Metadata attribute) USES_SYMPTOMMANAGER (Metadata attribute)

V

values() (LogsDict method)

W

warning() (Logger method) Wasting (class in tlo.methods.wasting) weighted_mean() (Deviance method) when() (Predictor method) which_functions_to_print() (in module tlo.docs) who_has() (SymptomManager method)

who_not_have() (SymptomManager method) write_log_to_excel() (in module tlo.analysis.utils) write_rst_file() (in module tlo.docs) write_to_hsi_log() (HealthSystem method) write_to_log() (HealthBurden method) write_to_never_ran_hsi_log() (HealthSystem method)