Articles • InfectionTrees

Get started

Get going

Getting started with `InfectionTrees`

The model

Learn about our model

The model
The multiple outside transmissions extension to the model
Sampling transmission trees given a cluster $C$
Sampling enough MC trees

Simulations

Simulate data and fit the models

Binary covariate model simulations
Multiple covariate model simulations
Binary covariate multiple outside transmissions model simulations
Simulations to determine if we have enough MC samples

Tuberculosis in MD

Use our model on real data

First look at the Tuberculosis data
TB Data Results: base model
TB Data Results: Visualization of clusters

Reproducing results

Run it yourself

Reproduce paper results

Everything

All articles

Getting started with `InfectionTrees`
Binary covariate model simulations
Multiple covariate model simulations
The model
Binary covariate multiple outside transmissions model simulations
The multiple outside transmissions extension to the model
Reproduce paper results
Sampling enough MC trees
Sampling transmission trees given a cluster $C$
Simulations to determine if we have enough MC samples
TB Data Results: base model but with positive imputation
TB Data Results: base model
TB Data Results: Visualization of clusters
First look at the Tuberculosis data