linktree is a novel framework that estimates group transmission
assortativity from transmission trees.
You can install linktree from CRAN:
install.packages("linktree")
Group transmission assortativity quantifies the extent to which individuals transmit within their own group compared to others. The methodology is described in our paper, and briefly discussed on YouTube.
The $\gamma$ coefficient ranges from 0 to $\infty$. It describes the
excess propability of transmitting within your own group versus other
groups. See get_gamma().
We can rescale $\gamma$ to the $\delta$ coefficient, which ranges from
-1 to 1 using get_delta().
linktree requires that you have transmission chain data (i.e. who
infected whom) and group membership for each individual in the
transmission chain.
For more information, check the dedicated vignette.