The trace by default contains the following parameters in the SIR/SEIR hierarchical model. XXX denotes a number.
| Name in trace | Dimensions | Created by function |
|---|---|---|
| lambda_XXX_L1 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| lambda_XXX_L2 | samples x regions | lambda_t_with_sigmoids/make_change_point_RVs |
| sigma_lambda_XXX_L2 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| transient_day_XXX_L1 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| transient_day_XXX_L2 | samples x regions | lambda_t_with_sigmoids/make_change_point_RVs |
| sigma_transient_day_XXX_L2 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| transient_len_XXX_L1 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| transient_len_XXX_L2 | samples x regions | lambda_t_with_sigmoids/make_change_point_RVs |
| sigma_transient_len_XXX_L2 | samples | lambda_t_with_sigmoids/make_change_point_RVs |
| delay_L1 | samples | delay_cases |
| delay_L2 | samples x regions | delay_cases |
| sigma_delay_L2 | samples | delay_cases |
| weekend_factor_L1 | samples | week_modulation |
| weekend_factor_L2 | samples x regions | week_modulation |
| sigma_weekend_factor_L2 | samples | week_modulation |
| offset_modulation | samples | week_modulation |
| new_cases_raw | samples x time x regions | week_modulation |
| mu | samples | SIR/SEIR |
| I_begin | samples x regions | SIR/SEIR |
| new_cases | samples x time x regions | SIR/SEIR |
| sigma_obs | samples x regions | SIR/SEIR |
| new_E_begin | samples x 11 x regions | SEIR |
| median_incubation_L1 | samples | SEIR |
| median_incubation_L2 | samples x regions | SEIR |
| sigma_median_incubation_L2 | samples | SEIR |
For the non-hierchical model, variables with _L2 suffixes are missing, and _L1 suffixes are removed from the name.