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Create a visual table from a summariseClinicalRecord() output.

Source: R/tableClinicalRecords.R
tableClinicalRecords.Rd

Create a visual table from a summariseClinicalRecord() output.

Usage

tableClinicalRecords(result, type = "gt")

Arguments

result

Output from summariseClinicalRecords().

type

Type of formatting output table. See visOmopResults::tableType() for allowed options.

Value

A formatted table object with the summarised data.

Examples

# \donttest{
cdm <- mockOmopSketch()

summarisedResult <- summariseClinicalRecords(
  cdm = cdm,
  omopTableName = c("condition_occurrence", "drug_exposure"),
  recordsPerPerson = c("mean", "sd"),
  inObservation = TRUE,
  standardConcept = TRUE,
  sourceVocabulary = TRUE,
  domainId = TRUE,
  typeConcept = TRUE
)
#> ℹ Adding variables of interest to condition_occurrence.
#> ℹ Summarising records per person in condition_occurrence.
#> ℹ Summarising condition_occurrence: `in_observation`, `standard_concept`,
#>   `source_vocabulary`, `domain_id`, and `type_concept`.
#> ℹ Adding variables of interest to drug_exposure.
#> ℹ Summarising records per person in drug_exposure.
#> ℹ Summarising drug_exposure: `in_observation`, `standard_concept`,
#>   `source_vocabulary`, `domain_id`, and `type_concept`.

summarisedResult |>
  suppress(minCellCount = 5) |>
  tableClinicalRecords()



  
Variable name
      Variable level
      Estimate name
      
        
Database name

      		
    
mockOmopSketch
    
condition_occurrence
    
Number records
-
N
8,400
Number subjects
-
N (%)
100 (100.00%)
Records per person
-
Mean (SD)
84.00 (8.73)
In observation
Yes
N (%)
8,400 (100.00%)
Domain
Condition
N (%)
8,400 (100.00%)
Source vocabulary
No matching concept
N (%)
8,400 (100.00%)
Standard concept
S
N (%)
8,400 (100.00%)
Type concept id
Unknown type concept: 1
N (%)
8,400 (100.00%)
drug_exposure
    
Number records
-
N
21,600
Number subjects
-
N (%)
100 (100.00%)
Records per person
-
Mean (SD)
216.00 (14.17)
In observation
Yes
N (%)
21,600 (100.00%)
Domain
Drug
N (%)
21,600 (100.00%)
Source vocabulary
No matching concept
N (%)
21,600 (100.00%)
Standard concept
S
N (%)
21,600 (100.00%)
Type concept id
Unknown type concept: 1
N (%)
21,600 (100.00%)

PatientProfiles::mockDisconnect(cdm)
# }