preProcessResample: Pre-process and Resample Dataset

In immunaut: Machine Learning Immunogenicity and Vaccine Response Analysis

Pre-process and Resample Dataset

Description

This function applies pre-processing transformations to the dataset, then resamples it. Pre-processing parameters are estimated strictly from the training dataset (datasetData), and optionally applied to a separate test dataset (testData) to prevent data leakage.

Usage

preProcessResample(
  datasetData,
  preProcess,
  selectedOutcomeColumns,
  outcome_and_classes,
  settings,
  testData = NULL
)

Arguments

datasetData	Dataframe to be pre-processed (e.g. training data).
preProcess	Vector of pre-processing methods to apply.
selectedOutcomeColumns	Character vector of outcome columns.
outcome_and_classes	List of outcomes and their classes.
settings	A named list containing settings for the analysis. If NULL, defaults will be used. The settings list may contain: seed: An integer seed value for reproducibility.
testData	Optional dataframe of test data to be pre-processed using the parameters estimated from datasetData. Default is NULL.

Value

A list containing:

• preProcessMapping: The pre-processing mapping (e.g. PCA rotation matrix if applicable).

• datasetData: The pre-processed training dataset.

• testData: The pre-processed test dataset (if testData was provided, otherwise NULL).

• preprocessParams: A list containing the fitted preprocessing parameter objects (impute and transform).

immunaut documentation built on Sept. 10, 2026, 5:09 p.m.