growth_rate_ratio: Estimate the growth rate ratio

In seandavi/sars2pack: COVID-19 data resources and analysis tools

Estimate the growth rate ratio

Description

Calculate the growth rate ratio as defined in Badr et al.

Usage

growth_rate_ratio(v, Ws = 3, Wl = 7, smooth_window = 7)

Arguments

v	a numeric vector of new cases per day (incidence)
Ws	integer(1), the number of days to average for the shorter window
Wl	integer(1), the number of days to average to the longer window
smooth_window	integer(1), the size of the window to apply rolling mean smoothing to. The smoothing is applied before the summary process occurs

Details

The Growth Rate Ratio is defined as the logarithmic rate of change (number of newly reported cases) over the previous Ws days relative to the logarithmic rate of change over the longer Wl days. GR for any county j on a day t was calculated as follows: where Cjt is the number of new cases reported in county j on a day t.

Value

a numeric vector

Author(s)

Sean Davis [e-mail]

References

• https://doi.org/10.1016/S1473-3099(20)30553-3

Examples

if(requireNamespace("zoo")) {
nyt= nytimes_state_data() %>% dplyr::filter(fips=='00053' & subset=='confirmed') %>%
     add_incidence_column()
mgr = nyt %>% dplyr::pull(inc) %>% growth_rate_ratio()
}

seandavi/sars2pack documentation built on May 13, 2022, 3:41 p.m.