calc_epidemic_onset: Calculate epidemic onset

In cercospoRa: Process Based Epidemiological Model for Cercospora Leaf Spot of Sugar Beet

Calculate epidemic onset

Description

Calculate epidemic onset

Usage

calc_epidemic_onset(start, end, c_closure, weather, cultivar_sus = 5)

Arguments

start	POSIXct, start date in which to begin calculating the epidemic onset, if not specified, the first date in the weather data will be used.
end	POSIXct, end date, last date to complete calculating the epidemic onset, if not specified, the last date in the weather data will be used.
c_closure	POSIXct formatted date to start the model running the model This is usually at canopy closure (Wolf)
weather	data.table, formatted with format_weather
cultivar_sus	character, susceptibility of the cultivar in "R" resistant, "S" susceptible, "MR" moderately resistant etc.

Value

If the input weather is conducive for epidemic, the function returns a POSIX_ct date when epidemic commences. If no epidemic occurs, a numeric, proportion indicating the progress an epidemic is returned

Examples

wethr <- read.csv(system.file("extdata", "clean_weather.csv",
                  package = "cercospoRa"))
wethr <- format_weather(wethr,time_zone = "UTC")

calc_epidemic_onset(start = as.POSIXct("2022-04-25",tz = "UTC"),
                    end = as.POSIXct("2022-09-30",tz = "UTC"),
                    c_closure = as.POSIXct("2022-07-01",tz = "UTC"),
                    weather = wethr)

cercospoRa documentation built on April 12, 2025, 1:28 a.m.