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reference/antibiogram.md

@@ -132,23 +132,25 @@ knit_print(x, italicise = TRUE,
   `"shortname"` (default), `"gramstain"`, or one of the column names of
   the
   [microorganisms](https://amr-for-r.org/reference/microorganisms.md)
-  data set: "mo", "fullname", "status", "kingdom", "phylum", "class",
-  "order", "family", "genus", "species", "subspecies", "rank", "ref",
-  "oxygen_tolerance", "source", "lpsn", "lpsn_parent",
-  "lpsn_renamed_to", "mycobank", "mycobank_parent",
-  "mycobank_renamed_to", "gbif", "gbif_parent", "gbif_renamed_to",
-  "prevalence", or "snomed". Can also be `NULL` to not transform the
-  input or `NA` to consider all microorganisms 'unknown'.
+  data set: .val mo, .val fullname, .val status, .val kingdom, .val
+  phylum, .val class, .val order, .val family, .val genus, .val species,
+  .val subspecies, .val rank, .val ref, .val oxygen_tolerance, .val
+  source, .val lpsn, .val lpsn_parent, .val lpsn_renamed_to, .val
+  mycobank, .val mycobank_parent, .val mycobank_renamed_to, .val gbif,
+  .val gbif_parent, .val gbif_renamed_to, .val prevalence, or .val
+  snomed. Can also be `NULL` to not transform the input or `NA` to
+  consider all microorganisms 'unknown'.
 
 - ab_transform:
 
   A character to transform antimicrobial input - must be one of the
   column names of the
   [antimicrobials](https://amr-for-r.org/reference/antimicrobials.md)
-  data set (defaults to `"name"`): "ab", "cid", "name", "group", "atc",
-  "atc_group1", "atc_group2", "abbreviations", "synonyms", "oral_ddd",
-  "oral_units", "iv_ddd", "iv_units", or "loinc". Can also be `NULL` to
-  not transform the input.
+  data set (defaults to `"name"`): .val ab, .val cid, .val name, .val
+  group, .val atc, .val atc_group1, .val atc_group2, .val abbreviations,
+  .val synonyms, .val oral_ddd, .val oral_units, .val iv_ddd, .val
+  iv_units, or .val loinc. Can also be `NULL` to not transform the
+  input.
 
 - syndromic_group: