Pair-based Estimators of Infection and Removal Rates

Requires devtools::install_github("sdtemple/pblas") from R terminal.

Next steps

• [] Perform some unit tests of code correctness
• [] Use AI to improve docstrings
• Simulate a lot of data
  • [] Redo the 2 beta, 2 gamma simulation (tricky with partial data for pbla)
  • [] Rerun with median / mean approaches
• Simulator with different $\beta$ and $\gamma$
• Qualitatively check correctness
• Multi type implementation of PBLA
• Multi type implementation of tau-based estimator
• Median imputation in tau moments when possible
• Parametric bootstrap
• Multi type MLE with complete data
• [] Spatial tau-based and PBLA estimators
• [] Spatial simulator
• [] Fixed exposure period implementation of tau-based estimator
• [] Truncated exponential for online inference
• [] Multi type Bayesian with complete data
• [] DAMCMC approaches
• [] Python implementation?
• [] EINNs?