Function reference

All functions

ModelDiffNet() plot(<epiworld_diffnet>)

Network Diffusion Model

ModelSEIR() plot(<epiworld_seir>)

Susceptible Exposed Infected Recovered model (SEIR)

ModelSEIRCONN() plot(<epiworld_seirconn>)

Susceptible Exposed Infected Removed model (SEIR connected)

ModelSEIRD() plot(<epiworld_seird>)

Susceptible-Exposed-Infected-Recovered-Deceased model (SEIRD)

ModelSEIRDCONN() plot(<epiworld_seirdconn>)

Susceptible Exposed Infected Removed Deceased model (SEIRD connected)

ModelSIR() plot(<epiworld_sir>)

SIR model

ModelSIRCONN() plot(<epiworld_sirconn>)

Susceptible Infected Removed model (SIR connected)

ModelSIRD() plot(<epiworld_sird>)

SIRD model

ModelSIRDCONN() plot(<epiworld_sirdconn>)

Susceptible Infected Removed Deceased model (SIRD connected)

ModelSIRLogit()

SIR Logistic model

ModelSIS() plot(<epiworld_sis>)

SIS model

ModelSISD() plot(<epiworld_sisd>)

SISD model

ModelSURV() plot(<epiworld_surv>)

SURV model

agents_smallworld() agents_from_edgelist() get_network() get_agents_states() add_virus_agent() add_tool_agent() has_virus() has_tool() change_state() get_agents_tools()

Load agents to a model

get_hist_total() get_today_total() get_hist_virus() get_hist_tool() get_transition_probability() get_reproductive_number() plot(<epiworld_repnum>) plot_reproductive_number() get_hist_transition_matrix() as.array(<epiworld_hist_transition>) plot_incidence() plot(<epiworld_hist_transition>) get_transmissions() get_generation_time() plot(<epiworld_generation_time>) plot_generation_time()

Accessing the database of epiworld

queuing_on() queuing_off() verbose_off() verbose_on() run() summary(<epiworld_model>) get_states() get_param() set_param() set_name() get_name() get_n_viruses() get_n_tools() get_ndays() get_n_replicates() size() set_agents_data() get_agents_data_ncols() get_virus() get_tool() initial_states() clone_model()

Methods for epiworldR objects

globalaction_tool() globalaction_tool_logit() globalaction_set_params() globalaction_fun()

Deprecated functions in epiworldR

epiworldR epiworldR-package

epiworldR

get_agents() `[`(<epiworld_agents>) print(<epiworld_agent>) print(<epiworld_agents>) get_state()

Agents in epiworldR

globalevent_tool() globalevent_tool_logit() globalevent_set_params() globalevent_fun() add_globalevent()

Global Actions

run_multiple() run_multiple_get_results() make_saver()

Run multiple simulations at once

tool() set_name_tool() get_name_tool() add_tool() add_tool_n() rm_tool() tool_fun_logit() set_susceptibility_reduction() set_susceptibility_reduction_ptr() set_susceptibility_reduction_fun() set_transmission_reduction() set_transmission_reduction_ptr() set_transmission_reduction_fun() set_recovery_enhancer() set_recovery_enhancer_ptr() set_recovery_enhancer_fun() set_death_reduction() set_death_reduction_ptr() set_death_reduction_fun() print(<epiworld_agents_tools>)

Tools in epiworld

virus() set_name_virus() get_name_virus() add_virus() add_virus_n() virus_set_state() rm_virus() virus_fun_logit() set_prob_infecting() set_prob_infecting_ptr() set_prob_infecting_fun() set_prob_recovery() set_prob_recovery_ptr() set_prob_recovery_fun() set_prob_death() set_prob_death_ptr() set_prob_death_fun() set_incubation() set_incubation_ptr() set_incubation_fun()

Virus design