linktree0.1.0 package

Estimate Transmission Assortativity Coefficients

check_alpha

Check 'alpha' value

check_delta

Check 'delta' value

check_flevels

Check 'f' levels

check_fromto

Check 'from' and 'to' vectors

check_gamma

Check 'gamma' value

check_xn

Check 'x' and 'n' values

delta2gamma

Convert delta to gamma

gamma2delta

Convert gamma to delta

get_delta

Calculate delta

get_gamma

Calculate gamma

get_pi

Calculate Pi Values

plot.linktree

Plot linktree objects

Download source packageRead PDF manual

Estimates group transmission assortativity coefficients from transmission trees. Group transmission assortativity coefficients measure the tendency for individuals to transmit within their own group (e.g. age group, vaccination status, or location) compared to other groups. The package requires information on who infected whom, group membership for all individuals, and the relative sizes of each group in the population. For more details see Geismar et al. (2024) <doi:10.1371/journal.pone.0313037>.

  • Maintainer: Cyril Geismar
  • License: CC BY 4.0
  • Last published: 2025-12-15

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