Estimate the Effective Reproductive Number with Trend Filtering
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Documentation for package ‘rtestim’ version 1.0.0
Help Pages
| cancovid | Canadian Incident COVID-19 Cases |
| confband | Add confidence bands to estimated Rt or incidence curves |
| configure_rt_admm | Rt estimation algorithm configuration |
| cv_estimate_rt | Leave-kth-out cross validation for choosing a optimal parameter lambda |
| delay_calculator | Calculate the total infectiousness at each observed time point. |
| discretize_gamma | Compute the discretized density function for gamma distribution |
| estimate_rt | Estimate Rt using smoothness-penalized Poisson likelihood |
| fitted.cv_poisson_rt | Fitted cv_poisson_rt |
| interpolate_rt | Interpolate (or extrapolate) Rt estimates to intermediate design points |
| interpolate_rt.cv_poisson_rt | Interpolate (or extrapolate) Rt estimates to intermediate design points |
| interpolate_rt.poisson_rt | Interpolate (or extrapolate) Rt estimates to intermediate design points |
| plot.cv_poisson_rt | Plot cv_poisson_rt |
| plot.poisson_rt | Plot estimated Rt values from a 'poisson_rt' object |
| plot.rt_confidence_band | Plot estimated confidence bands for an estimate of Rt |
| predict.cv_poisson_rt | Predict observed data using estimated Rt |
| predict.poisson_rt | Predict observed data using estimated Rt |