Create a gt table from a summarised omop_table.

Create a gt table from a summarised omop_table.

Usage

tableClinicalRecords(result)

Arguments

result

Output from summariseClinicalRecords().

Value

A gt object with the summarised data.

Examples

# \donttest{
library(dplyr)
library(OmopSketch)

# Connect to a mock database
cdm <- mockOmopSketch()

# Run summarise clinical tables
summarisedResult <- summariseClinicalRecords(cdm = cdm,
                                            omopTableName = "condition_occurrence",
                                            recordsPerPerson = c("mean", "sd"),
                                            inObservation = TRUE,
                                            standardConcept = TRUE,
                                            sourceVocabulary = TRUE,
                                            domainId = TRUE,
                                            typeConcept = TRUE)
#> ℹ Summarising table counts
#> ℹ The following estimates will be computed:
#> → Start summary of data, at 2024-09-18 22:29:39.592732
#> ✔ Summary finished, at 2024-09-18 22:29:39.719835
#> ℹ Summarising records per person
#> ℹ The following estimates will be computed:
#> • records_per_person: mean, sd
#> → Start summary of data, at 2024-09-18 22:29:40.459638
#> ✔ Summary finished, at 2024-09-18 22:29:40.646498
#> ℹ Summarising in_observation, standard, domain_id, source, and type information
tableClinicalRecords(summarisedResult)
#> ! Results have not been suppressed.


  
Variable name
      
Variable level
      
Estimate name
      

        Database name
      
    
mockOmopSketch
    
condition_occurrence
    
number records
-
N
1,900
number subjects
-
N%
100 (100.00)
records_per_person
-
Mean (SD)
19.00 (4.21)
In observation
Yes
N%
1,900 (100.00)
Standard concept
Source
N%
1,900 (100.00)
Source vocabulary
No matching concept
N%
1,900 (100.00)
Domain
Condition
N%
1,900 (100.00)
Type concept id
1
N%
1,900 (100.00)
PatientProfiles::mockDisconnect(cdm)
# }