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Calculate Fatal Resistance Prevalence (R_k)

Source: R/daly_rr_and_los.R
daly_calc_resistance_prevalence_fatal.Rd

Computes the profile-weighted expected proportion of deaths attributable to resistance (R_k) and the expected odds ratio of death (E[OR_death]) for each pathogen.

Usage

daly_calc_resistance_prevalence_fatal(
  profiles_with_rr,
  probability_col = "probability",
  rr_profile_col = "RR_LOS_profile"
)

Arguments

profiles_with_rr

Named list returned by daly_assign_rr_to_profiles() or daly_filter_profiles_to_rr_classes().

probability_col

Character. Profile probability column. Default "probability".

rr_profile_col

Character. Profile-level OR column. Default "RR_LOS_profile".

Value

Named list (one entry per pathogen) each containing per_profile data frame, R_k, and E_OR_k.