Function reference
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get_parameters()
- Establish the list of model parameters
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create_variables()
- Generate a list of the model variables
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generate_initial_age_classes()
- Generates a vector of the age classes of all individuals in the population
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generate_initial_disease_states()
- Generate a vector of the initial disease states of all individuals in the population
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generate_initial_households()
- Generates a vector of households for all individuals in the population
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generate_initial_households_bootstrap()
- Generates a vector of households for all individuals in the population
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generate_initial_leisure()
- Generate a list of leisure settings that each individual visits
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generate_initial_schools()
- Generate a vector of school assignments for all individuals in the population
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generate_initial_schools_bootstrap()
- Generate a vector of school assignments for all individuals in the population
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generate_initial_workplaces()
- Gets workplace assignments for all individuals in the population
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create_EI_process()
- Create process governing exposed to infectious disease state transition
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create_IR_process()
- Create process governing infectious to recovered disease state transition
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create_RS_process()
- Create process governing recovered (and immune) back to susceptible disease state transition
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create_SE_process()
- Create process governing susceptible to exposed disease state transition
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create_external_source_process()
- Create process governing exposed to infectious disease state transition
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create_processes()
- Define and create all model processes
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create_events()
- Generate a list of model events with listeners
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run_simulation()
- Run the simulation
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run_simulations_from_table()
- Run helios simulations using table of parameter values
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sample_log_normal()
- Sample variables from an log-normal distribution with fixed sum
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sample_negbinom()
- Sample variables from a negative binomial distribution with fixed sum
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sample_offset_truncated_power_distribution()
- Sample variables from an offset truncated power distribution with fixed sum
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baseline_household_demographics_uk
- Data from ONS 2011 on baseline household demographics from Hinch et al.
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baseline_household_demographics_usa
- Data from RTI Synthetic population of USA containing information on household size and age distribution. Selected for the county of San Francisco.
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schools_uk
- Data on English schools from the 2022/2023 School Census
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schools_usa
- Data on US schools from 2019/2020 from the National Center for Education Statistics
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generate_far_uvc_switches()
- Update model parameters with far UVC switches
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generate_setting_far_uvc_switches()
- Generate far UVC switches for particular setting
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set_uvc()
- Update model parameters with far UVC settings
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generate_setting_specific_riskinesses()
- generate_setting_specific_riskinesses
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set_setting_specific_riskiness()
- set_setting_specific_riskiness
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generate_betas()
- generate_betas
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get_setting_size()
- get_setting_size