find_rts_strata: Finds Region Specific Reproductive Numbers

In kyamkovoy/RepNumEst: Estimate the Effective Reproductive Number

Description

Using data and specified serial interval, finds the effective reproductive for each region while allowing for interaction between regions. The default serial interval uses an estimate for the United States on the weekly time scale.

Usage

find_rts_strata(data, num_strata = 4, strata_mat = diag(4),
  si_shape = 1.47, si_rate = 0.04529, k = 100)

Arguments

data	Dataframe to be used for estimating reproductive numbers. Must contain 'cases' column and numerical 'region' column.
num_strata	Integer for the number of strata that the data is being split by. Default is 4.
strata_mat	Matrix representing interactions between strata.
si_shape	Shape parameter for serial interval.
si_rate	Rate parameter for serial interval.
k	Maximum length of serial interval.

Value

List of effective reproductive numbers for each stratum and corresponding week numbers. For analysis, these reproductive numbers must be seperated.

kyamkovoy/RepNumEst documentation built on May 27, 2019, 2:07 p.m.