Infections: Infections
In swash: Swash-Backwash Model for the Single Epidemic Wave

Infections

R Documentation

Infections

Description

Daily SARS-CoV-2 infection in Germany spring 2020

Usage

data(Infections)

Format

A data.frame with multiple columns:

infectedtest_CW2: Calendar week 2020 of conducted test
infection_date: Estimated date of infection
infections_daily: Daily infections
infections_daily_lwr: Daily infections lower confidence interval
infections_daily_upr: Daily infections upper confidence interval
infections_cum: Cumulative infections
infections_cum_lwr: Cumulative infections lower confidence interval
infections_cum_upr: Cumulative infections upper confidence interval
R4: Estimated effective reproduction number R_t with generation interval = 4
R4_lwr: Estimated effective reproduction number R_t with generation interval = 4 lower confidence interval
R4_upr: Estimated effective reproduction number R_t with generation interval = 4 upper confidence interval
R7: Estimated effective reproduction number R_t with generation interval = 7
R7_lwr: Estimated effective reproduction number R_t with generation interval = 7 lower confidence interval
R7_upr: Estimated effective reproduction number R_t with generation interval = 7 upper confidence interval
onsets_of_symptoms: Daily onsets of symptoms
onsets_of_symptoms_lwr: Daily onsets of symptoms lower confidence interval
onsets_of_symptoms_upr: Daily onsets of symptoms upper confidence interval
reported_cases: Daily reported cases
day: Time counter (day)
ln_inf_cum: Nat. log. of cumulative infections
ln_inf_daily: Nat. log. of daily infections
ln_R4: Nat. log. of estimated effective reproduction number R_t with generation interval = 4
ln_R7: Nat. log. of estimated effective reproduction number R_t with generation interval = 7
infection_date_CW: Calendar week of infection data (numeric)
infection_date_CW2: Calendar week of infection data (categorical)
infectedtest_CW: Calendar week of conducted test
conducted_tests: No. of conducted tests
negative_tests: No. of negative tests
positive_tests: No. of positive tests
positive_tests_share: Share of positive tests (average per day)
conducted_tests_index: No. of conducted tests (average per day), index (CW 14 = 100)
conducted_tests_dailyaverage: No. of conducted tests, average per day
positive_tests_dailyaverage: Positive tests, average per day
infections_daily_testweighted: Daily infections weighted by test volume
ln_inf_daily_tw: Nat. log. of daily infections weighted by test volume

Details

Example data with daily SARS-CoV-2 infections in Germany. See Wieland (2020) for data sources and method of backdating infections.

Source

Wieland T (2020) A phenomenological approach to assessing the effectiveness of COVID-19 related nonpharmaceutical interventions in Germany. Safety Science 131, 104924. \Sexpr[results=rd]{tools:::Rd_expr_doi("https://doi.org/10.1016/j.ssci.2020.104924")}