calf_fractional: calf_fractional

In CALF: Coarse Approximation Linear Function

calf_fractional

Description

Randomly selects from binary input provided to data parameter while ensuring the requested proportions of case and control variables are used and runs Coarse Approximation Linear Function.

Usage

calf_fractional(
  data,
  nMarkers,
  controlProportion = 0.8,
  caseProportion = 0.8,
  optimize = "pval",
  verbose = FALSE
)

Arguments

data	Matrix or data frame. Must be binary data such that the first column must contain case/control dummy coded variable, as function is only approprite for binary data.
nMarkers	Maximum number of markers to include in creation of sum.
controlProportion	Proportion of control samples to use, default is .8.
caseProportion	Proportion of case samples to use, default is .8.
optimize	Criteria to optimize, "pval" or "auc". Defaults to "pval".
verbose	Logical. Indicate TRUE to print activity at each iteration to console. Defaults to FALSE.

Value

A data frame containing the chosen markers and their assigned weight (-1 or 1)

The optimal AUC or pval for the classification.

rocPlot. A plot object from ggplot2 for the receiver operating curve.

Examples

calf_fractional(data = CaseControl, nMarkers = 6, controlProportion = .8, caseProportion = .4)

CALF documentation built on March 18, 2022, 5:35 p.m.