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Aggregate Posterior Profile Draws into R_ALL and R_NF Summaries

Source: R/daly_resistance_profiles.R
aggregate_profiles_for_daly.Rd

Summarises draw-level R_ALL and R_NF values from compute_event_profile_probabilities() into posterior mean and credible interval per hospital x pathogen x profile combination. All \(2^D\) profiles are present in the output (inherited from the complete enumeration in the simulation step).

Usage

aggregate_profiles_for_daly(
  profile_output,
  hospital_col = "hospital",
  pathogen_col = "pathogen",
  estimand = "observed_stewardship_event_mix",
  ci_level = 0.95
)

Arguments

profile_output

List returned by compute_event_profile_probabilities().

hospital_col

Character. Hospital column in aggregate_draws. Must match the upper RE column used during fitting. Default "hospital".

pathogen_col

Character. Pathogen column. Default "pathogen".

estimand

Character. Estimand label to attach to output. Default "observed_stewardship_event_mix".

ci_level

Numeric. Credible interval coverage. Default 0.95.

Value

Tibble with one row per hospital x pathogen x profile: R_ALL and R_NF posterior mean and credible interval.