Expected number of true transmission pairs assuming multiple-transmission and single-linkage

This function calculates the expected number true transmission pairs in a sample of size M. The multiple-transmission and single-linkage method assumes the following:

1. Each case \(i\) is, on average, the infector of R cases in the population (\(N\))

2. Each case \(i\) is allowed to be linked by the linkage criteria to only one other case \(j\) in the sampled population (\(M\)).

true_pairs_mtsl(eta, rho, M, R)

Arguments

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

Value

scalar or vector giving the expected number of true transmission pairs in the sample

See also

Other true_pairs: true_pairs_mtml(), true_pairs_stsl(), true_pairs()

Author

John Giles, Shirlee Wohl and Justin Lessler

Examples

true_pairs_mtsl(eta=0.95, rho=0.2, M=200, R=1)
#> Warning: `true_pairs_mtsl()` was deprecated in phylosamp 1.0.0.
#> ℹ Please use `translink_expected_links_true_mtsl()` instead.
#> Warning: The `eta` argument of `true_pairs_mtsl()` is deprecated as of phylosamp 1.0.0.
#> ℹ Please use the `sensitivity` argument of
#>   `translink_expected_links_true_mtsl()` instead.
#> [1] 38