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Comprehensive Prognostic Modeling Pipeline

Source: R/integrate.R
int_pro.Rd

Executes a complete prognostic (survival) modeling workflow including single models, bagging, and stacking ensembles. Returns C-index and time-dependent AUROC metrics.

Usage

int_pro(
  ...,
  model_names = NULL,
  tune = TRUE,
  n_estimators = 10,
  seed = 123,
  time_unit = "day",
  years_to_evaluate = c(1, 3, 5)
)

Arguments

...

Data frames for survival analysis. First = training; others = test sets. Format: first column = ID, second = outcome (0/1), third = time, remaining = features.

model_names

Character vector specifying which models to use. If NULL (default), uses all registered prognostic models.

tune

Logical, enable tuning. Default TRUE.

n_estimators

Integer, bagging iterations. Default 10.

seed

Integer for reproducibility. Default 123.

time_unit

Time unit in data: "day", "month", or "year". Default "day".

years_to_evaluate

Numeric vector of years for time-dependent AUROC. Default c(1,3,5).

Value

A list with:

  • all_results: All model outputs

  • cindex_matrix: C-index values (models × datasets)

  • avg_auroc_matrix: Average time-dependent AUROC (models × datasets)

  • model_categories: Model category labels

  • dataset_names: Dataset identifiers

Examples

if (FALSE) { # \dontrun{
prognosis_results <- int_pro(train_pro, test_pro1, test_pro2)
} # }