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Compute YLDs Attributable to Resistance

Source: R/burden.R
compute_yld_attributable.Rd

Multiplies YLD_k (from calculate_YLD()) by the LOS-based PAF (from compute_paf_los()).

Usage

compute_yld_attributable(
  yld_k_tbl,
  paf_los_list,
  pathogen_col = "pathogen",
  yld_col = "YLD"
)

Arguments

yld_k_tbl

Data frame from calculate_YLD() containing at least a pathogen column and a YLD column.

paf_los_list

Named list from compute_paf_los().

pathogen_col

Character. Pathogen column in yld_k_tbl. Default "pathogen".

yld_col

Character. YLD column in yld_k_tbl. Default "YLD".

Value

yld_k_tbl augmented with columns PAF_k, denominator, and YLD_attributable.

Details

YLD_attributable_k = YLD_k * PAF_k

Answers: "How much disability burden exists *only because* infections were resistant instead of susceptible?" This is a counterfactual – it measures the excess burden driven purely by resistance.

Note: YLD_attributable_k < YLD_associated_k always, because PAF_k = Fraction_k * (1 - 1/E_RR_k) < Fraction_k.