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Update gender_source_concept_id text 

closes #631
This commit is contained in:
Clair Blacketer 2024-04-12 11:55:22 -04:00
parent 611e810dbe
commit 8971ed2f66
2 changed files with 2 additions and 2 deletions
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2
inst/csv/OMOP_CDMv5.3_Field_Level.csv
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@ -184,7 +184,7 @@ death,death_datetime,No,datetime,NA,If not available set time to midnight (00:00
death,death_type_concept_id,No,integer,"This is the provenance of the death record, i.e., where it came from. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.",Use the type concept that be reflects the source of the death record. [Accepted Concepts](https://athena.ohdsi.org/search-terms/terms?domain=Type+Concept&standardConcept=Standard&page=1&pageSize=15&query=).,No,Yes,CONCEPT,CONCEPT_ID,Type Concept,NA,NA death,death_type_concept_id,No,integer,"This is the provenance of the death record, i.e., where it came from. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.",Use the type concept that be reflects the source of the death record. [Accepted Concepts](https://athena.ohdsi.org/search-terms/terms?domain=Type+Concept&standardConcept=Standard&page=1&pageSize=15&query=).,No,Yes,CONCEPT,CONCEPT_ID,Type Concept,NA,NA
death,cause_concept_id,No,integer,"This is the Standard Concept representing the Person's cause of death, if available.","There is no specified domain for this concept, just choose the Standard Concept Id that best represents the person's cause of death.",No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA death,cause_concept_id,No,integer,"This is the Standard Concept representing the Person's cause of death, if available.","There is no specified domain for this concept, just choose the Standard Concept Id that best represents the person's cause of death.",No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA
death,cause_source_value,No,varchar(50),NA,"If available, put the source code representing the cause of death here.",No,No,NA,NA,NA,NA,NA death,cause_source_value,No,varchar(50),NA,"If available, put the source code representing the cause of death here.",No,No,NA,NA,NA,NA,NA
death,cause_source_concept_id,No,integer,NA,If the cause of death was coded using a Vocabulary present in the OMOP Vocabularies put the CONCEPT_ID representing the cause of death here.,No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA death,cause_source_concept_id,No,integer,NA,If the cause of death was coded using a Vocabulary present in the OMOP Vocabularies (not necessarily a standard concept) put the CONCEPT_ID representing the cause of death here.,No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA
note,note_id,Yes,integer,A unique identifier for each note.,NA,Yes,No,NA,NA,NA,NA,NA note,note_id,Yes,integer,A unique identifier for each note.,NA,Yes,No,NA,NA,NA,NA,NA
note,person_id,Yes,integer,NA,NA,No,Yes,PERSON,PERSON_ID,NA,NA,NA note,person_id,Yes,integer,NA,NA,No,Yes,PERSON,PERSON_ID,NA,NA,NA
note,note_date,Yes,date,The date the note was recorded.,NA,No,No,NA,NA,NA,NA,NA note,note_date,Yes,date,The date the note was recorded.,NA,No,No,NA,NA,NA,NA,NA

1 cdmTableName cdmFieldName isRequired cdmDatatype userGuidance etlConventions isPrimaryKey isForeignKey fkTableName fkFieldName fkDomain fkClass unique DQ identifiers
184 note provider_id No integer The Provider who wrote the note. The ETL may need to make a determination on which provider to put here. No Yes PROVIDER PROVIDER_ID NA NA NA
185 note visit_occurrence_id No integer The Visit during which the note was written. NA No Yes VISIT_OCCURRENCE VISIT_OCCURRENCE_ID NA NA NA
186 note visit_detail_id No integer The Visit Detail during which the note was written. NA No Yes VISIT_DETAIL VISIT_DETAIL_ID NA NA NA
187 note note_source_value No varchar(50) NA The source value mapped to the NOTE_CLASS_CONCEPT_ID. No No NA NA NA NA NA
188 note_nlp note_nlp_id Yes integer A unique identifier for the NLP record. NA Yes No NA NA NA NA NA
189 note_nlp note_id Yes integer This is the NOTE_ID for the NOTE record the NLP record is associated to. NA No No NA NA NA NA NA
190 note_nlp section_concept_id No integer NA The SECTION_CONCEPT_ID should be used to represent the note section contained in the NOTE_NLP record. These concepts can be found as parts of document panels and are based on the type of note written, i.e. a discharge summary. These panels can be found as concepts with the relationship 'Subsumes' to CONCEPT_ID [45875957](https://athena.ohdsi.org/search-terms/terms/45875957). No Yes CONCEPT CONCEPT_ID NA NA NA

2
inst/csv/OMOP_CDMv5.4_Field_Level.csv
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@ -196,7 +196,7 @@ death,death_datetime,No,datetime,NA,If not available set time to midnight (00:00
death,death_type_concept_id,No,integer,"This is the provenance of the death record, i.e., where it came from. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.",Use the type concept that be reflects the source of the death record. [Accepted Concepts](https://athena.ohdsi.org/search-terms/terms?domain=Type+Concept&standardConcept=Standard&page=1&pageSize=15&query=). A more detailed explanation of each Type Concept can be found on the [vocabulary wiki](https://github.com/OHDSI/Vocabulary-v5.0/wiki/Vocab.-TYPE_CONCEPT).,No,Yes,CONCEPT,CONCEPT_ID,Type Concept,NA,NA death,death_type_concept_id,No,integer,"This is the provenance of the death record, i.e., where it came from. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.",Use the type concept that be reflects the source of the death record. [Accepted Concepts](https://athena.ohdsi.org/search-terms/terms?domain=Type+Concept&standardConcept=Standard&page=1&pageSize=15&query=). A more detailed explanation of each Type Concept can be found on the [vocabulary wiki](https://github.com/OHDSI/Vocabulary-v5.0/wiki/Vocab.-TYPE_CONCEPT).,No,Yes,CONCEPT,CONCEPT_ID,Type Concept,NA,NA
death,cause_concept_id,No,integer,"This is the Standard Concept representing the Person's cause of death, if available.","There is no specified domain for this concept, just choose the Standard Concept Id that best represents the person's cause of death.",No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA death,cause_concept_id,No,integer,"This is the Standard Concept representing the Person's cause of death, if available.","There is no specified domain for this concept, just choose the Standard Concept Id that best represents the person's cause of death.",No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA
death,cause_source_value,No,varchar(50),NA,"If available, put the source code representing the cause of death here.",No,No,NA,NA,NA,NA,NA death,cause_source_value,No,varchar(50),NA,"If available, put the source code representing the cause of death here.",No,No,NA,NA,NA,NA,NA
death,cause_source_concept_id,No,integer,NA,If the cause of death was coded using a Vocabulary present in the OMOP Vocabularies put the CONCEPT_ID representing the cause of death here.,No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA death,cause_source_concept_id,No,integer,NA,If the cause of death was coded using a Vocabulary present in the OMOP Vocabularies (not necessarily a standard concept) put the CONCEPT_ID representing the cause of death here.,No,Yes,CONCEPT,CONCEPT_ID,NA,NA,NA
note,note_id,Yes,integer,A unique identifier for each note.,NA,Yes,No,NA,NA,NA,NA,NA note,note_id,Yes,integer,A unique identifier for each note.,NA,Yes,No,NA,NA,NA,NA,NA
note,person_id,Yes,integer,NA,NA,No,Yes,PERSON,PERSON_ID,NA,NA,NA note,person_id,Yes,integer,NA,NA,No,Yes,PERSON,PERSON_ID,NA,NA,NA
note,note_date,Yes,date,The date the note was recorded.,NA,No,No,NA,NA,NA,NA,NA note,note_date,Yes,date,The date the note was recorded.,NA,No,No,NA,NA,NA,NA,NA

1 cdmTableName cdmFieldName isRequired cdmDatatype userGuidance etlConventions isPrimaryKey isForeignKey fkTableName fkFieldName fkDomain fkClass unique DQ identifiers
196 note provider_id No integer The Provider who wrote the note. The ETL may need to make a determination on which provider to put here. No Yes PROVIDER PROVIDER_ID NA NA NA
197 note visit_occurrence_id No integer The Visit during which the note was written. NA No Yes VISIT_OCCURRENCE VISIT_OCCURRENCE_ID NA NA NA
198 note visit_detail_id No integer The Visit Detail during which the note was written. NA No Yes VISIT_DETAIL VISIT_DETAIL_ID NA NA NA
199 note note_source_value No varchar(50) NA The source value mapped to the NOTE_CLASS_CONCEPT_ID. No No NA NA NA NA NA
200 note note_event_id No integer If the Note record is related to another record in the database, this field is the primary key of the linked record. Put the primary key of the linked record, if applicable, here. No No NA NA NA NA NA
201 note note_event_field_concept_id No integer If the Note record is related to another record in the database, this field is the CONCEPT_ID that identifies which table the primary key of the linked record came from. Put the CONCEPT_ID that identifies which table and field the NOTE_EVENT_ID came from. No Yes CONCEPT CONCEPT_ID NA NA NA
202 note_nlp note_nlp_id Yes integer A unique identifier for the NLP record. NA Yes No NA NA NA NA NA