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Get Chi PPV Parameters and Save Parameter Data Frame

Source: R/get_suspected_cases.R
get_suspected_cases.Rd

This function generates the Beta distribution parameters for the positive predictive value (PPV) of the cholera clinical case definition under endemic and epidemic conditions (chi_endemic and chi_epidemic) and saves them as a parameter data frame.

Usage

get_suspected_cases(PATHS)

Arguments

PATHS

A list containing paths where the parameter data will be saved. Typically generated by the get_paths() function and should include:

  • MODEL_INPUT: Path to the directory where the parameter data frame will be saved.

Value

Invisibly, a data frame containing the Beta distribution parameters for chi_endemic (low/all-settings estimate) and chi_epidemic (high/outbreak estimate).

Details

Estimates are manually extracted from Weins et al. 2023 (PLOS Medicine, doi:10.1371/journal.pmed.1004286), which characterises the cholera surveillance pyramid across sub-Saharan African settings.