Class Member Functions

a

• AdjList (AdjList)
• Agent (Agent)
• add_entity (Agent, Model)
• add_neighbor (Agent)
• add_tool (Agent, Model)
• AgentsSample (AgentsSample)
• add_contact (ContactTracing)
• add_user_data (DataBase, Model)
• add_agent (Entity)
• agent_recovers (InterventionMeaslesPEP)
• add_globalevent (Model)
• add_param (Model)
• add_state (Model)
• add_virus (Model)
• agents_bernoulli (Model)
• agents_empty_graph (Model)
• agents_from_adjlist (Model)
• agents_from_edgelist (Model)
• agents_sbm (Model)
• agents_smallworld (Model)
• add_triggering_agent (QuarantineTrigger)
• add (UserData)

b

• begin (AgentsSample, Entity, Viruses, Viruses_const)

c

• change_state (Agent)
• ContactTracing (ContactTracing)
• check (EpiAssert)
• check_bounds (EpiAssert)
• check_non_negative (EpiAssert)
• check_probability (EpiAssert)
• check_size (EpiAssert)
• check_sum (EpiAssert)
• clone_ptr (GlobalEvent, InterventionMeaslesPEP, Model, ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRCONN, ModelSEIRDCONN, ModelSEIRMixing, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine, ModelSIRCONN, ModelSIRDCONN, ModelSIRLogit, ModelSIRMixing, Tool, ToolImmunoglobulin, ToolVaccine, Virus)
• chrono_end (LFMCMC, Model)
• chrono_start (LFMCMC, Model)
• clear_state_set (Model)
• contact_tracing_off (Model)
• contact_tracing_on (Model)
• clear (ModelDiagram)

d

• DataBase (DataBase)
• distribute (Entity, Tool, Virus)
• death_reduction_mixer (Model)
• dist_entities (Model)
• dist_tools (Model)
• dist_virus (Model)
• draw (Model, ModelDiagram)
• draw_dot (ModelDiagram)
• draw_from_data (ModelDiagram)
• draw_from_file (ModelDiagram)
• draw_from_files (ModelDiagram)
• draw_mermaid (ModelDiagram)

e

• ecount (AdjList)
• end (AgentsSample, Entity, Viruses, Viruses_const)
• Entity (Entity)
• Event (Event)
• events_run (Model)
• EPI_TYPENAME_TRAITS (Tool, Virus)
• epi_xoshiro256ss (epi_xoshiro256ss)

f

• fmt_location (EpiAssert)

g

• get_dat (AdjList)
• get_death_reduction (Agent, Tool)
• get_entities (Agent, Model)
• get_entity (Agent, Model)
• get_id (Agent, Entity, Tool, Virus)
• get_n_entities (Agent, Model)
• get_n_neighbors (Agent)
• get_n_tools (Agent, DataBase, Model)
• get_neighbors (Agent)
• get_recovery_enhancer (Agent, Tool)
• get_state (Agent, Entity, Tool, Virus)
• get_state_last_changed (Agent)
• get_state_prev (Agent)
• get_susceptibility_reduction (Agent, Tool, ToolImmunoglobulin, ToolVaccine)
• get_tool (Agent, Model)
• get_tools (Agent, Model)
• get_transmission_reduction (Agent, Tool)
• get_virus (Agent, Model)
• get_contact (ContactTracing)
• get_location (ContactTracing, Entity)
• get_max_contacts (ContactTracing)
• get_n_contacts (ContactTracing)
• get_active_cases (DataBase)
• get_generation_time (DataBase)
• get_hist_tool (DataBase)
• get_hist_total (DataBase)
• get_hist_transition_matrix (DataBase)
• get_hist_virus (DataBase)
• get_hospitalizations (DataBase, Model)
• get_model (DataBase)
• get_n_viruses (DataBase, Model)
• get_nexposed (DataBase)
• get_outbreak_size (DataBase)
• get_reproductive_number (DataBase)
• get_sequence (DataBase)
• get_today_total (DataBase)
• get_today_transition_matrix (DataBase)
• get_today_virus (DataBase)
• get_transition_probability (DataBase)
• get_transmissions (DataBase)
• get_user_data (DataBase, Model)
• get_agents (Entity, Model)
• get_agents_ids (Entity)
• get_name (Entity, GlobalEvent, Model, Tool, Virus)
• get_queue (Entity, Model, Tool, Virus)
• GlobalEvent (GlobalEvent)
• get_day (GlobalEvent)
• get (HospitalizationsTracker)
• get_all_accepted_kernel_scores (LFMCMC)
• get_all_accepted_params (LFMCMC)
• get_all_accepted_stats (LFMCMC)
• get_all_sample_acceptance (LFMCMC)
• get_all_sample_drawn_prob (LFMCMC)
• get_all_sample_kernel_scores (LFMCMC)
• get_all_sample_params (LFMCMC)
• get_all_sample_stats (LFMCMC)
• get_current_accepted_params (LFMCMC)
• get_current_accepted_stats (LFMCMC)
• get_current_proposed_params (LFMCMC)
• get_current_proposed_stats (LFMCMC)
• get_elapsed_time (LFMCMC)
• get_epsilon (LFMCMC)
• get_initial_params (LFMCMC)
• get_mean_params (LFMCMC)
• get_mean_stats (LFMCMC)
• get_n_params (LFMCMC)
• get_n_samples (LFMCMC)
• get_n_stats (LFMCMC)
• get_observed_stats (LFMCMC)
• get_rand_endgine (LFMCMC, Model)
• get_simulated_data (LFMCMC)
• get_agent (Model, Tool, Virus)
• get_agents_data (Model)
• get_agents_data_ncols (Model)
• get_agents_states (Model)
• get_agents_viruses (Model)
• get_contact_tracing (Model)
• get_db (Model)
• get_elapsed (Model)
• get_globalevent (Model)
• get_n_replicates (Model)
• get_n_states (Model)
• get_ndays (Model)
• get_param (Model)
• get_rewire_prop (Model)
• get_sim_id (Model)
• get_state_fun (Model)
• get_states (Model)
• get_verbose (Model)
• get_viruses (Model)
• get_agent_quarantine_triggered (ModelMeaslesMixing, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• get_contact_matrix (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixingQuarantine)
• get_isolation_willingness (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• get_quarantine_willingness (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• get_days_quarantine_triggered (ModelMeaslesMixingRiskQuarantine)
• get_quarantine_risk_level (ModelMeaslesMixingRiskQuarantine)
• generation_time_expected (ModelSEIRCONN, ModelSIRCONN)
• get_n_infected (ModelSEIRCONN, ModelSEIRDCONN, ModelSIRCONN, ModelSIRMixing)
• get_date_infectious (QuarantineTrigger)
• get_triggering_agents (QuarantineTrigger)
• get_date (Tool, Virus)
• get_all (UserData)
• get_data (UserData)
• get_dates (UserData)
• get_names (UserData)
• get_incubation (Virus)
• get_prob_death (Virus)
• get_prob_infecting (Virus)
• get_prob_recovery (Virus)

h

• has_entity (Agent)
• has_tool (Agent, Model)
• has_virus (Agent, Model)
• HospitalizationsTracker (HospitalizationsTracker)

i

• is_directed (AdjList, Model)
• InterventionMeaslesPEP (InterventionMeaslesPEP)
• initial_states (Model, ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIR, ModelSEIRCONN, ModelSEIRD, ModelSEIRDCONN, ModelSEIRMixing, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine, ModelSIR, ModelSIRCONN, ModelSIRD, ModelSIRMixing)
• is_contact_tracing_on (Model)
• is_queuing_on (Model)
• index (ModelSIRMixing)

l

• LFMCMC (LFMCMC)
• load_agents_entities_ties (Model)

m

• mutate_virus (Agent, Model)
• Model (Model)
• ModelDiagram (ModelDiagram)
• ModelDiffNet (ModelDiffNet)
• ModelMeaslesMixing (ModelMeaslesMixing)
• ModelMeaslesMixingRiskQuarantine (ModelMeaslesMixingRiskQuarantine)
• m_add_contact_tracing (ModelMeaslesMixingRiskQuarantine)
• m_get_risk_period (ModelMeaslesMixingRiskQuarantine)
• ModelMeaslesSchool (ModelMeaslesSchool)
• ModelSEIR (ModelSEIR)
• ModelSEIRCONN (ModelSEIRCONN)
• ModelSEIRD (ModelSEIRD)
• ModelSEIRDCONN (ModelSEIRDCONN)
• ModelSEIRMixing (ModelSEIRMixing)
• ModelSEIRMixingQuarantine (ModelSEIRMixingQuarantine)
• ModelSEIRNetworkQuarantine (ModelSEIRNetworkQuarantine)
• ModelSIR (ModelSIR)
• ModelSIRCONN (ModelSIRCONN)
• ModelSIRD (ModelSIRD)
• ModelSIRDCONN (ModelSIRDCONN)
• ModelSIRLogit (ModelSIRLogit)
• ModelSIRMixing (ModelSIRMixing)
• ModelSIS (ModelSIS)
• ModelSISD (ModelSISD)
• ModelSURV (ModelSURV)
• mutate (Virus)
• max (epi_xoshiro256ss)
• min (epi_xoshiro256ss)

n

• next (Model, ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRMixingQuarantine, Progress)
• ncol (UserData)
• nrow (UserData)

o

• operator() (AdjList, Agent, AgentsSample, GlobalEvent, InterventionMeaslesPEP, Model, UserData, Viruses, Viruses_const, epi_xoshiro256ss, vecHasher)
• operator= (AdjList, Agent, Model)
• operator!= (Agent, DataBase, Entity, GlobalEvent, Model, Queue, Tool, Virus)
• operator== (Agent, DataBase, Entity, GlobalEvent, Model, Queue, Tool, Virus)
• operator[] (AgentsSample, Entity, Queue, Viruses, Viruses_const)
• operator+= (Queue)
• operator-= (Queue)

p

• print (AdjList, Agent, ContactTracing, Entity, GlobalEvent, LFMCMC, Model, Tool, UserData, Virus, Viruses, Viruses_const)
• par (Model)
• params (Model)
• print_state_codes (Model)
• Progress (Progress)
• post_recovery (Virus)

q

• queuing_off (Model)
• queuing_on (Model)
• QuarantineTrigger (QuarantineTrigger)

r

• read_edgelist (AdjList)
• reset (Agent, ContactTracing, DataBase, Entity, HospitalizationsTracker, Model, ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRCONN, ModelSEIRDCONN, ModelSEIRMixing, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine, ModelSIRCONN, ModelSIRLogit, ModelSIRMixing, ModelSURV, Queue)
• rm_agent_by_virus (Agent)
• rm_entity (Agent, Model)
• rm_tool (Agent, Model)
• rm_virus (Agent, Model)
• record (DataBase, HospitalizationsTracker)
• record_hospitalization (DataBase, Model)
• record_tool (DataBase)
• record_transition (DataBase)
• record_transmission (DataBase)
• record_virus (DataBase)
• rm_agent (Entity)
• rgamma (LFMCMC, Model)
• rnorm (LFMCMC, Model)
• run (LFMCMC, Model)
• runif (LFMCMC, Model)
• rbinom (Model)
• read_params (Model)
• recovery_enhancer_mixer (Model)
• rewire (Model)
• rexp (Model)
• rgeom (Model)
• rlognormal (Model)
• rm_globalevent (Model)
• rnbinom (Model)
• rpoiss (Model)
• run_globalevents (Model)
• run_multiple (Model)
• runif_index (Model)
• runif_int (Model)
• read_transitions (ModelDiagram)
• rotl (epi_xoshiro256ss)

s

• set_virus (Agent)
• swap_neighbors (Agent)
• sample_n (AgentsSample)
• size (AgentsSample, DataBase, Entity, HospitalizationsTracker, Model, Viruses, Viruses_const)
• set_seq_hasher (DataBase)
• set_user_data (DataBase, Model)
• set_distribution (Entity, Tool, Virus)
• set_location (Entity)
• set_queue (Entity, Tool, Virus)
• set_state (Entity, Tool, Virus)
• set_day (GlobalEvent)
• set_name (GlobalEvent, Model, Tool, Virus)
• seed (LFMCMC, Model, epi_xoshiro256ss)
• set_kernel_fun (LFMCMC)
• set_observed_data (LFMCMC)
• set_params_names (LFMCMC)
• set_proposal_fun (LFMCMC)
• set_rand_engine (LFMCMC, Model)
• set_rand_gamma (LFMCMC, Model)
• set_simulation_fun (LFMCMC)
• set_stats_names (LFMCMC)
• set_summary_fun (LFMCMC)
• sample_from_probs (Model)
• set_agents_data (Model)
• set_backup (Model)
• set_ndays (Model)
• set_param (Model)
• set_rand_binom (Model)
• set_rand_exp (Model)
• set_rand_geom (Model)
• set_rand_lognormal (Model)
• set_rand_nbinom (Model)
• set_rand_norm (Model)
• set_rand_poiss (Model)
• set_rand_unif (Model)
• set_rewire_fun (Model)
• set_rewire_prop (Model)
• set_sim_id (Model)
• set_state_function (Model)
• state_of (Model)
• susceptibility_reduction_mixer (Model)
• sample_agents (ModelMeaslesMixing, ModelSEIRMixing, ModelSIRMixing)
• set_contact_matrix (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixing, ModelSEIRMixingQuarantine, ModelSIRMixing)
• sample_infectious_agents (ModelMeaslesMixingRiskQuarantine)
• start (Progress)
• set_agent (Tool, Virus)
• set_date (Tool, Virus)
• set_death_reduction (Tool)
• set_death_reduction_fun (Tool)
• set_id (Tool, Virus)
• set_recovery_enhancer (Tool)
• set_recovery_enhancer_fun (Tool)
• set_sequence (Tool, Virus)
• set_susceptibility_reduction (Tool, ToolImmunoglobulin, ToolVaccine)
• set_susceptibility_reduction_fun (Tool, ToolImmunoglobulin, ToolVaccine)
• set_transmission_reduction (Tool)
• set_transmission_reduction_fun (Tool)
• set_incubation (Virus)
• set_incubation_fun (Virus)
• set_mutation (Virus)
• set_post_immunity (Virus)
• set_post_recovery (Virus)
• set_prob_death (Virus)
• set_prob_death_fun (Virus)
• set_prob_infecting (Virus)
• set_prob_infecting_fun (Virus)
• set_prob_recovery (Virus)
• set_prob_recovery_fun (Virus)
• splitmix64 (epi_xoshiro256ss)

t

• today (Model)
• transmission_reduction_mixer (Model)
• transition_probability (ModelDiagram)
• Tool (Tool)
• ToolImmunoglobulin (ToolImmunoglobulin)
• ToolVaccine (ToolVaccine)

u

• update_state (DataBase, Model)
• update_tool (DataBase)
• update_virus (DataBase)
• update_infected (ModelSEIRCONN, ModelSEIRDCONN, ModelSIRCONN)
• update_infected_list (ModelSEIRMixing, ModelSIRMixing)
• UserData (UserData)

v

• vcount (AdjList)
• verbose_off (LFMCMC, Model)
• verbose_on (LFMCMC, Model)
• Virus (Virus)
• Viruses (Viruses)
• Viruses_const (Viruses_const)

w

• write_data (DataBase, Model)
• write_edgelist (Model)
• write (UserData)

~

• ~Agent (Agent)
• ~AgentsSample (AgentsSample)
• ~Entity (Entity)
• ~GlobalEvent (GlobalEvent)
• ~LFMCMC (LFMCMC)
• ~Model (Model)
• ~Progress (Progress)
• ~Tool (Tool)
• ~Virus (Virus)

_

• _setup (InterventionMeaslesPEP, QuarantineTrigger)
• _add_event (Model)
• _event_add_entity (Model)
• _event_add_tool (Model)
• _event_add_virus (Model)
• _event_change_state (Model)
• _event_rm_entity (Model)
• _event_rm_tool (Model)
• _event_rm_virus (Model)
• _quarantine_process (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_hospitalized (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_infectious_list (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine)
• _update_isolated (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_isolated_recovered (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_latent (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool)
• _update_prodromal (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool)
• _update_quarantine_latent (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine)
• _update_quarantine_prodromal (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine)
• _update_quarantine_recovered (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine)
• _update_quarantine_suscep (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_rash (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool)
• _update_susceptible (ModelMeaslesMixing, ModelMeaslesMixingRiskQuarantine, ModelMeaslesSchool, ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _quarantine_agents (ModelMeaslesSchool)
• _update_infectious (ModelMeaslesSchool)
• _update_q_latent (ModelMeaslesSchool)
• _update_q_prodromal (ModelMeaslesSchool)
• _update_q_recovered (ModelMeaslesSchool)
• _update_q_susceptible (ModelMeaslesSchool)
• _sample_agents (ModelSEIRMixingQuarantine)
• _update_exposed (ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_infected (ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _update_infected_list (ModelSEIRMixingQuarantine)
• _update_quarantine_exposed (ModelSEIRMixingQuarantine, ModelSEIRNetworkQuarantine)
• _error_method (ToolImmunoglobulin)
• _remove_tool (ToolImmunoglobulin)
• _set_immunity (ToolImmunoglobulin, ToolVaccine)