Overview | Example Data | Timing Workflows | Results

Installation | Transmission assortativity | Gamma | Delta | Estimation | Example | Data | Visualise the transmission tree | Estimate the transmission assortativity coefficient

Introduction | Methods | Input Requirements | Usage | PERMANOVA | Chi-Square Test | Advanced Usage | Using Custom Distance Functions | Note | Future Developments

Examples | system.time() | tictoc | time_pipe

Introduction | Identify | Get individual trees | Performance | Accuracy | Entropy | Visualisation | Augment the linelist with outbreaker2's results | Consensus tree | Maximum posterior tree | Additional analyses