Normalize Antibiotic Names — normalize_antibiotic • anumaan

Standardizes antibiotic names using fuzzy matching against WHO reference. Similar approach to organism normalization.

Usage

normalize_antibiotic(
  data,
  antibiotic_col = "antibiotic_name",
  who_table = NULL,
  add_class = TRUE,
  add_aware = TRUE
)

Arguments

data: Data frame with antibiotic data
antibiotic_col: Character. Column name with antibiotic names. Default "antibiotic_name".
who_table: Data frame. WHO AWaRe classification table. If NULL, loads from inst/extdata/WHO_aware_class.csv.
add_class: Logical. Add antibiotic_class column. Default TRUE.
add_aware: Logical. Add aware_category column. Default TRUE.

Value

Data frame with antibiotic_normalized, antibiotic_class, aware_category

Examples

if (FALSE) { # \dontrun{
data <- normalize_antibiotic(data, antibiotic_col = "antibiotic_name")
} # }