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check gender specific events - descendants of a given concept #519

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check gender specific events - descendants of a given concept #519

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5cfaca7
initial changes to the OMOP_CDMv5.4_Field_Level.csv by adding columns
Dec 22, 2023
2a844c1
procedures added
Jan 10, 2024
857dcc1
plausible gender with descendants check added as a new concept check
Jan 12, 2024
ad2e50c
fixed formatting issue with unit concept_ids numbers
Jan 12, 2024
c969c24
added threshold column, fixed description for a new check
Jan 15, 2024
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3 changes: 2 additions & 1 deletion inst/csv/OMOP_CDMv5.4_Check_Descriptions.csv
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Expand Up @@ -21,4 +21,5 @@ FIELD,plausibleTemporalAfter,The number and percent of records with a value in t
FIELD,plausibleDuringLife,"If yes, the number and percent of records with a date value in the @cdmFieldName field of the @cdmTableName table that occurs after death.",Verification,Plausibility,Temporal,field_plausible_during_life.sql,plausibleDuringLife=='Yes'
FIELD,withinVisitDates,The number and percent of records not within one week on either side of the corresponding visit occurrence start and end date,Verification,Conformance,,field_within_visit_dates.sql,withinVisitDates=='Yes'
CONCEPT,plausibleGender,"For a CONCEPT_ID @conceptId (@conceptName), the number and percent of records associated with patients with an implausible gender (correct gender = @plausibleGender).",Validation,Plausibility,Atemporal,concept_plausible_gender.sql,plausibleGender!=''
CONCEPT,plausibleUnitConceptIds,"The number and percent of records for a given CONCEPT_ID @conceptId (@conceptName) with implausible units (i.e., UNIT_CONCEPT_ID NOT IN (@plausibleUnitConceptIds)).",Verification,Plausibility,Atemporal,concept_plausible_unit_concept_ids.sql,plausibleUnitConceptIdsThreshold!=''
CONCEPT,plausibleGenderUseDescendants,"For descendants of CONCEPT_ID @conceptId (@conceptName), the number and percent of records associated with patients with an implausible gender (correct gender = @plausibleGenderUseDescendants).",Validation,Plausibility,Atemporal,concept_plausible_gender_use_descendants.sql,plausibleGenderUseDescendants!=''
CONCEPT,plausibleUnitConceptIds,"The number and percent of records for a given CONCEPT_ID @conceptId (@conceptName) with implausible units (i.e., UNIT_CONCEPT_ID NOT IN (@plausibleUnitConceptIds)).",Verification,Plausibility,Atemporal,concept_plausible_unit_concept_ids.sql,plausibleUnitConceptIdsThreshold!=''
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