0058 domain example

R/domain_example.R

@@ -18,29 +18,10 @@
 #'
 #' ### Example SDTM domains
 #'
-#' \describe{
-#' \item{`"ae_ophtha"`}{Ophthalmology Adverse Events Dataset.}
-#' \item{`"ae"`}{Adverse Events Dataset-updated.}
-#' \item{`"ce_vaccine"`}{Clinical Events Dataset for Vaccine Studies.}
-#' \item{`"cm"`}{Concomitant Medication Dataset.}
-#' \item{`"dm_vaccine"`}{Demographics Dataset for Vaccine Studies.}
-#' \item{`"dm"`}{Demography Dataset.}
-#' \item{`"ds"`}{Disposition Dataset-updated.}
-#' \item{`"eg"`}{	Electrocardiogram Dataset.}
-#' \item{`"ex_ophtha"`}{Ophthalmology Exposure Dataset.}
-#' \item{`"ex_vaccine"`}{Exposures Dataset for Vaccine Studies.}
-#' \item{`"ex"`}{Exposure Dataset.}
-#' \item{`"face_vaccine"`}{Findings About Clinical Events Dataset for Vaccine Studies.}
-#' \item{`"is_vaccine"`}{Immunogenicity Specimen Assessments Dataset for Vaccine Studies.}
-#' \item{`"lb"`}{Laboratory Measurements Dataset.}
-#' \item{`"mh"`}{Medical History Dataset-updated.}
-#' \item{`"oe_ophtha"`}{Ophthalmology Adverse Events Dataset.}
-#' \item{`"pc"`}{Pharmacokinetics Concentrations Dataset.}
-#' \item{`"pp"`}{Pharmacokinetics Parameters Dataset.}
-#' \item{`"qs_ophtha"`}{Ophthalmology Questionnaire Dataset.}
-#' \item{`"rs_onco_irecist"`}{Disease Response Dataset (iRECIST).}
-#' \item{`"rs_onco"`}{Disease Response Dataset.}
-#' }
+#' - `"ae"`: Adverse Events (AE) data set.
+#' - `"apsc"`: Associated Persons Subject Characteristics (APSC) data set.
+#' - `"cm"`: Concomitant Medications (CM) data set.
+#' - `"vs"`: Vital Signs (VS) data set.
 #'
 #' @param example A string with either the basename, file name, or relative path
 #'   to a SDTM domain example file bundled with `{stdm.oak}`, e.g. `"cm"`

_pkgdown.yml

@@ -27,6 +27,7 @@ reference:
   - condition_add
   - ctl_new_rowid_pillar.cnd_df
   - tbl_sum.cnd_df
+  - mutate.cnd_df
 
 - title: SDTM examples
   desc: SDTM domain file examples

inst/WORDLIST

@@ -64,3 +64,4 @@ RFSTDTC
 RFXSTDTC
 TPT
 xxTPT
+APSC

tests/testthat/_snaps/derive_blfl.md

@@ -80,33 +80,33 @@
 
 # derive_blfl sdmt_in validations work
 
-    Required variable `DOMAIN` is missing
+    Required variable `DOMAIN` is missing in `sdtm_in`
 
 ---
 
-    Required variables `oak_id`, `raw_source` and `patient_number` are missing
+    Required variables `oak_id`, `raw_source`, and `patient_number` are missing in `sdtm_in`
 
 ---
 
-    Required variables `VSORRES`, `VSSTAT`, `VSTESTCD` and `VSDTC` are missing
+    Required variables `VSORRES`, `VSSTAT`, `VSTESTCD`, and `VSDTC` are missing in `sdtm_in`
 
 # derive_blfl dm_domain validations work
 
-    Required variables `USUBJID` and `RFXSTDTC` are missing
+    Required variables `USUBJID` and `RFXSTDTC` are missing in `dm_domain`
 
 # derive_blfl tgt_var and ref_var validations work
 
-    `tgt_var` must be a character scalar but is a list
+    Argument `tgt_var` must be a scalar of class <character>, but is a list.
 
 ---
 
-    `ref_var` must be a character scalar but is a data frame
+    Argument `ref_var` must be a scalar of class <character>, but is a tibble.
 
 ---
 
-    `tgt_var` must be one of 'VSBLFL' or 'VSLOBXFL' but is 'DMLOBXFL'
+    Argument `tgt_var` must be equal to one of "VSBLFL" or "VSLOBXFL".
 
 # derive_blfl DOMAIN validation works
 
-    `domain` must be a character scalar but is `4`
+    Argument `domain` must be a scalar of class <character>, but is an integer.