Skip to contents

ebdt: Evaluation of Binary Diagnostic Test

An R package for calculating quality measures of binary diagnostic tests with confidence intervals.

Overview

This package calculates the point estimate and confidence intervals of diagnostic test quality measures including:

  • Sensitivity & Specificity: Test accuracy for positives and negatives
  • Predictive Values: PPV and NPV for clinical prediction
  • Likelihood Ratios: PLR and NLR for test utility
  • Additional measures: Youden Index, Weighted Kappa, Prevalence

Supports both:

  • Cohort/Cross-sectional studies: Full parameter set.
  • Case-Control/Retrospective studies: Limited to Sensitivity, Specificity, Youden Index, and Likelihood Ratios.

Installation 

# Install from GitHub
remotes::install_github("migmontal/ebdt")

Quick Start 

library(ebdt)

# Example: 2x2 contingency table from a diagnostic test study
# TP=95, FP=10, FN=5, TN=290
ebdt(s1=95, r1=10, s0=5, r0=290, conflev=0.95, digits=3)

Features

  • Automatic calculation of confidence intervals using appropriate methods
  • Support for both cohort and case-control study designs
  • Customizable confidence level and decimal precision
  • Formatted console output with 2×2 contingency table
  • Interactive Shiny app for user-friendly analysis

Documentation

See the online documentation for: - Function reference - Usage examples - Methodological details and references

Shiny app

The package includes an interactive Shiny application:

shiny::runApp(system.file("app", package = "ebdt"))

or

Authors

  • Miguel Angel Montero-Alonso
  • Juan de Dios Luna del Castillo

License

MIT + file LICENSE