Package index
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admin_match() - match admin region
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check_seasonality() - Function that returns values from optional seasonal deterministic model
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compare_ancall() - Compare function to calculate likelihood
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compare_flex() - Compare function to calculate likelihood when fitting to a flexible age group
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compare_mg() - Compare function to calculate likelihood
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compare_pg() - Compare function to calculate likelihood
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compare_pgmg() - Compare function to calculate likelihood
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compare_u5() - Compare function to calculate likelihood
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data_informed() - Transformation function that calculates initial values for stochastic model
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data_process() - Process raw data for use in pMCMC
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data_sim - Non-specific simulated data
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equilibrium_init_create_stripped() - Equilibrium initialisation list creation
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format_na() - Change missing data to 0s so dbinom function returns 0 (instead of NA)
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get_anc_from_u5() - Return ANC prevalence given prevalence in <5 year old children
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get_init_EIR() - Return an initial EIR based on a user-given target prevalence in <5 yead old children
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get_init_EIR_u5() - Return an initial EIR based on a user-given target prevalence in <5 yead old children
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get_odds_from_prev() - Converts probability (prevalence) to log-odds
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get_prev_from_log_odds() - Converts log-odds to probability (or prevalence)
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initialise() - Estimate the initial state given user inputs
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load_file() - load_file
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match_clean() - match clean
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model_param_list_create() - Model Parameter List Creation
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run_pmcmc() - Run a pMCMC
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sim_data_tanzania - Tanzania site simulated data
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test_pf() - Test the particle filter
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transform_init() - transform final state of a seasonal model into the initial state of a stochastic model
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user_informed() - Transformation function that calculates initial values for stochastic model