Run Chef Pipeline with pharmhand Integration

Execute a chef analysis pipeline and return results as pharmhand.

Usage

run_chef_pipeline(
  adam_data,
  endpoints,
  output_type = c("results", "table", "report"),
  ...
)

Arguments

adam_data

Named list of ADaM datasets (e.g., list(adsl = adsl, adae = adae))

endpoints

List of endpoint specifications from create_chef_endpoint()

output_type

Type of output: "results", "table", or "report"

...

Additional arguments passed to chef functions

Value

Depending on output_type:

• "results": AnalysisResults object

• "table": ClinicalTable object

• "report": ClinicalReport object

Examples

if (FALSE) { # \dontrun{
# Define endpoints
endpoints <- list(
  create_chef_endpoint("AE Rate", "AEDECOD", type = "count")
)

# Run pipeline
report <- run_chef_pipeline(
  adam_data = list(adsl = adsl, adae = adae),
  endpoints = endpoints,
  output_type = "report"
)
} # }