Vignettes for dm and ae domains

DESCRIPTION

@@ -69,7 +69,9 @@ Suggests:
     spelling,
     testthat (>= 3.1.7),
     DT,
-    readr
+    readr,
+    pharmaversesdtm,
+    pharmaverseraw
 VignetteBuilder: knitr
 Config/testthat/edition: 3
 Config/testthat/parallel: true

inst/raw_data/sdtm_ct.csv

@@ -6,16 +6,29 @@ C66726,C42887,AEROSOL,Aerosol,Aerosol Dosage Form,aer
 C66726,C42944,INHALANT,Inhalant,Inhalant Dosage Form,
 C66726,C42946,INJECTION,Injection,Injectable Dosage Form,
 C66726,C42953,LIQUID,Liquid,Liquid Dosage Form,
+C66726,C42968,PATCH,Patch,patch,Patch Dosage Form
 C66726,C42998,TABLET,Tablet,Tablet Dosage Form,tab
 C66728,C25629,BEFORE,Prior,Prior,
 C66728,C53279,ONGOING,Continue,Continue,Continuous
+C66727,C41331,ADVERSE EVENT,Adverse Event,AE,ADVERSE EVENT
+C66727,C25250,COMPLETED,Complete,Completed,COMPLETE
+C66727,C28554,DEATH,Dead,Died,Death
+C66727,C48226,LACK OF EFFICACY,Lack of Efficacy,,
+C66727,C48227,LOST TO FOLLOW-UP,Lost To Follow-Up,,
+C66727,C48250,PHYSICIAN DECISION,Physician Decision,,
+C66727,C142185,PROTOCOL VIOLATION,Protocol Violation,Violation,
+C66727,C49628,SCREEN FAILURE,Trial Screen Failure,Failure to Meet Inclusion/Exclusion Criteria,
+C66727,C49632,STUDY TERMINATED BY SPONSOR,Study Terminated By Sponsor,,
+C66727,C49634,WITHDRAWAL BY SUBJECT,Withdrawal by Subject,Dropout,Discontinued Participation
 C66729,C28161,INTRAMUSCULAR,IM (Intramuscular),Intramuscular Route of Administration,
 C66729,C38210,EPIDURAL,EP (Epidural),Epidural Route of Administration,
 C66729,C38222,INTRA-ARTERIAL,IA (Intra-arterial),Intraarterial Route of Administration,
 C66729,C38223,INTRA-ARTICULAR,IJ (Intra-articular),Intraarticular Route of Administration,
 C66729,C38287,OPHTHALMIC,OP (Ophthalmic),Ophthalmic Route of Administration,
 C66729,C38288,ORAL,PO (Oral),Oral Route of Administration,Intraoral Route of Administration; PO
 C66729,C38305,TRANSDERMAL,DE (Transdermal),Transdermal Route of Administration,
+C66731,C16576,F,Female,Female,Female
+C66731,C20197,M,Male,Male,Male
 C66729,C38311,UNKNOWN,Unknown,Unknown Route of Administration,
 C66734,C49568,CM,Concomitant Medication Domain,Concomitant Medication Domain,Concomitant/Prior Medications
 C66741,C174446,TEMP,Body Temperature,Body Temperature,Body Temperature; Temperature
@@ -25,13 +38,25 @@ C66741,C49676,PULSE,Pulse Rate,Pulse Rate,Pulse Rate
 C66741,C49678,RESP,Respiratory Rate,Respiratory Rate,Respiratory Rate
 C66741,C60832,OXYSAT,Oxygen Saturation Measurement,Oxygen Saturation Measurement,Oxygen Saturation
 C66741,V00224,VSALL,VS Domain ALL Tests,VS Domain ALL Tests,
+C66742,C49487,N,No,No,No
 C66742,C49488,Y,Yes,Yes,Yes
+C66768,C48275,FATAL,Fatal,,
+C66768,C49494,NOT RECOVERED/NOT RESOLVED,Not Recovered/not Resolved,Not Recovered,Not Resolved
+C66768,C49498,RECOVERED/RESOLVED,Recovered/Resolved,Recovered,Resolved
+C66769,C41338,MILD,Mild Adverse Event,Mild Adverse Event,1; Grade 1
+C66769,C41339,MODERATE,Moderate Adverse Event,Moderate Adverse Event,2; Grade 2
+C66769,C41340,SEVERE,Severe Adverse Event,Severe Adverse Event,3; Grade 3
 C66770,C25613,%,Percentage,Percentage,Percentage
 C66770,C42559,C,Degree Celsius,Degree Celsius,Degree Celsius
 C66770,C49670,mmHg,Millimeter of Mercury,Millimeter of Mercury,Millimeter of Mercury
 C66770,C49673,beats/min,Beats per Minute,Beats per Minute,Beats per Minute; BPM; bpm
 C66770,C49674,breaths/min,Breaths per Minute,Breaths per Minute,Breaths per Minute
+C66781,C29848,YEARS,Year,year,
 C66789,C49484,NOT DONE,Not Done,Not Done,
+C66790,C17459,HISPANIC OR LATINO,Hispanic or Latino,,
+C66790,C41222,NOT HISPANIC OR LATINO,Not Hispanic or Latino,,
+C66790,C43234,NOT REPORTED,Not Reported,Not reported,
+C66790,C17998,UNKNOWN,Unknown,U; UNK; Unknown,
 C67153,C174446,Temperature,Body Temperature,Body Temperature,Body Temperature; Temperature
 C67153,C25298,Systolic Blood Pressure,Systolic Blood Pressure,Systolic Blood Pressure,Systolic Blood Pressure
 C67153,C25299,Diastolic Blood Pressure,Diastolic Blood Pressure,Diastolic Blood Pressure,Diastolic Blood Pressure
@@ -63,13 +88,52 @@ C74456,C12502,TYMPANIC MEMBRANE,Tympanic Membrane,Tympanic Membrane,Tympanic Mem
 C74456,C12674,AXILLA,Axilla,Axilla,Armpit; Axilla
 C74456,C32608,FINGER,FINGER,FINGER,Finger
 C74456,C89803,FOREHEAD,Forehead,Forehead,Forehead
+C74457,C41259,AMERICAN INDIAN OR ALASKA NATIVE,American Indian or Alaska Native,,
+C74457,C41260,ASIAN,Asian,,
+C74457,C16352,BLACK OR AFRICAN AMERICAN,Black or African American,,
+C74457,C41219,NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER,Native Hawaiian or Other Pacific Islander,,
+C74457,C43234,NOT REPORTED,Not Reported,,
+C74457,C17649,OTHER,Other,,
+C74457,C17998,UNKNOWN,Unknown,,
+C74457,C41261,WHITE,White,,
+C74558,C74590,DISPOSITION EVENT,Disposition Event,Protocol Disposition Event,
+C74558,C150824,OTHER EVENT,Other Event,Non-Protocol Disposition Event,
+C74558,C74588,PROTOCOL MILESTONE,Protocol Milestone,Protocol Milestone,
 C99073,C25228,RIGHT,Right,Right,
 C99073,C25229,LEFT,Left,Left,
+AEREL,AEREL,PROBABLE,Probably Related,,
+AEREL,AEREL,REMOTE,Remote,,
+AEREL,AEREL,POSSIBLE,Possibly Related,,
+ARM,ARM,Xanomeline High Dose,Xan High,,
+ARM,ARM,Xanomeline Low Dose,Xan Low,,
+AEREL,AEREL,NONE,Not Related,,
 TPT,TPT,PREDOSE,Pre-dose,,
 TPT,TPT,POSTDOSE,Post-dose,,
 TPTNUM,TPTNUM,1,Pre-dose,,
 TPTNUM,TPTNUM,2,Post-dose,,
 VISITNUM,VISITNUM,1,Screening,,
 VISITNUM,VISITNUM,2,Visit 1,,
+VISITNUM,VISITNUM,1,Screening  1,screening1,Screening1
+VISITNUM,VISITNUM,2,Screening  2,screening2,Screening2
+VISITNUM,VISITNUM,3,Baseline,baseline,BASELINE
+VISITNUM,VISITNUM,4,Week 2,WEEK 2,Week2
+VISITNUM,VISITNUM,5,Week 4,WEEK 4,Week4
+VISITNUM,VISITNUM,7,Week 6,WEEK 6,Week6
+VISITNUM,VISITNUM,8,Week 8,WEEK 8,Week8
+VISITNUM,VISITNUM,9,Week 12,WEEK 12,Week12
+VISITNUM,VISITNUM,10,Week 24,WEEK 24,Week24
+VISITNUM,VISITNUM,11,Week 26,WEEK 26,Week26
+VISITNUM,VISITNUM,201,Retrieval,RETRIEVAL,
 VISIT,VISIT,SCREENING,Screening,,
-VISIT,VISIT,VISIT 1,Visit 1,,
+VISIT,VISIT,VISIT 1,Visit 1,,
+VISIT,VISIT,SCREENING 1,Screening  1,screening1,Screening1
+VISIT,VISIT,SCREENING 2,Screening  2,screening2,Screening2
+VISIT,VISIT,BASELINE,baseline,Baseline,
+VISIT,VISIT,WEEK 2,Week 2,WEEK 2,Week2
+VISIT,VISIT,WEEK 4,Week 4,WEEK 4,Week4
+VISIT,VISIT,WEEK 6,Week 6,WEEK 6,Week6
+VISIT,VISIT,WEEK 8,Week 8,WEEK 8,Week8
+VISIT,VISIT,WEEK 12,Week 12,WEEK 12,Week12
+VISIT,VISIT,WEEK 24,Week 24,WEEK 24,Week24
+VISIT,VISIT,WEEK 26,Week 26,WEEK 26,Week26
+VISIT,VISIT,RETRIEVAL,Retrieval,retrieval,