1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
|
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/data.R
\docType{data}
\name{Flu1918}
\alias{Flu1918}
\title{Data on the 1918 H1N1 influenza pandemic in Baltimore.}
\format{A list of two elements:
\itemize{
\item \strong{incidence}: a vector containing 92 days of observation,
\item \strong{si_distr}: a vector containing a set of 12 probabilities.
}}
\source{
Frost W. and E. Sydenstricker (1919) Influenza in Maryland:
preliminary statistics of certain localities.
Public Health Rep.(34): 491-504.
}
\description{
This data set gives:
\enumerate{
\item the daily incidence of onset of disease in Baltimore during the 1918 H1N1
influenza pandemic (see source and references),
\item the discrete daily distribution of the serial interval for influenza,
assuming a shifted Gamma distribution with mean 2.6 days, standard
deviation 1.5 days and shift 1 day (see references).
}
}
\examples{
## load data on pandemic flu in Baltimore in 1918
data("Flu1918")
## estimate the reproduction number (method "non_parametric_si")
res <- estimate_R(Flu1918$incidence,
method = "non_parametric_si",
config = make_config(list(si_distr = Flu1918$si_distr)))
plot(res)
## the second plot produced shows, at each each day,
## the estimate of the reproduction number
## over the 7-day window finishing on that day.
}
\references{
Cauchemez S. et al. (2011) Role of social networks in shaping disease
transmission during a community outbreak of 2009 H1N1 pandemic influenza.
Proc Natl Acad Sci U S A 108(7), 2825-2830.
Ferguson N.M. et al. (2005) Strategies for containing an emerging influenza
pandemic in Southeast Asia. Nature 437(7056), 209-214.
Fraser C. et al. (2011) Influenza Transmission in Households During the 1918
Pandemic. Am J Epidemiol 174(5): 505-514.
Frost W. and E. Sydenstricker (1919) Influenza in Maryland: preliminary
statistics of certain localities. Public Health Rep.(34): 491-504.
Vynnycky E. et al. (2007) Estimates of the reproduction numbers of Spanish
influenza using morbidity data. Int J Epidemiol 36(4): 881-889.
White L.F. and M. Pagano (2008) Transmissibility of the influenza virus in
the 1918 pandemic. PLoS One 3(1): e1498.
}
|
