Variables saved in the trace

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.