View source: R/obs_pairs_mtsl.R
obs_pairs_mtsl | R Documentation |
This function calculates the expected number of pairs observed in a sample of size M
.
The multiple-transmission and single-linkage method assumes the following:
Each case i
is, on average, the infector of R
cases in the population (N
)
Each case i
is allowed to be linked by the linkage criteria to only one other case j
in the sampled population (M
).
obs_pairs_mtsl(chi, eta, rho, M, R)
chi |
scalar or vector giving the specificity of the linkage criteria |
eta |
scalar or vector giving the sensitivity of the linkage criteria |
rho |
scalar or vector giving the proportion of the final outbreak size that is sampled |
M |
scalar or vector giving the number of cases sampled |
R |
scalar or vector giving the effective reproductive number of the pathogen |
scalar or vector giving the expected number of linked pairs observed in the sample
John Giles, Shirlee Wohl and Justin Lessler
Other obs_pairs:
exp_links()
,
obs_pairs_mtml()
,
obs_pairs_stsl()
# Perfect sensitivity and specificity
obs_pairs_mtsl(eta=1, chi=1, rho=0.5, M=100, R=1)
obs_pairs_mtsl(eta=0.99, chi=0.9, rho=1, M=50, R=1)
obs_pairs_mtsl(eta=0.99, chi=0.9, rho=0.5, M=100, R=1)
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