Test Data Catalog - .omv Files by Menu Group
ClinicoPath Team
2026-01-08
Source:vignettes/test-data-catalog.Rmd
test-data-catalog.RmdClinicoPathJamoviModule Test Data (.omv files) by Menu Group
Total .omv Files: 945
Last Updated: 2026-01-08
GitHub Repository: ClinicoPathJamoviModule
How to Use This Guide
This document catalogs all 945 .omv (jamovi format) test data files available in the ClinicoPathJamoviModule. Each function section includes:
- Purpose: What the function does
- When to use: Clinical scenarios and research applications
- Files: List of available test data files with download links
Downloading Test Data Files
All .omv files are available on GitHub. Click any filename to download:
- Direct download: Click the filename link
- View in browser: Files open in jamovi web viewer if available
- Bulk download: Clone the entire repository for all files
Opening .omv Files in jamovi
- Download the .omv file from the link
- Open jamovi desktop application
- File → Open → Select the downloaded .omv file
- The data and any saved analyses will load automatically
Understanding File Naming
-
{function}_test.omv- Standard test dataset -
{function}_{scenario}.omv- Specific clinical scenario -
{function}_small.omv- Small sample for quick testing -
{function}_large.omv- Large sample for performance testing -
{function}_edge_cases.omv- Boundary conditions and special cases -
{function}_comprehensive.omv- Full feature demonstration
ClinicoPathDescriptives
agepyramid (1 file)
Purpose: Create population pyramids showing age distribution by gender When to use: Patient demographic visualization, epidemiological studies, cohort characterization Files:
alluvial (1 file)
Purpose: Visualize flow and transitions between categorical states over time When to use: Treatment pathways, disease progression, patient journey visualization Files:
benford (1 file)
Purpose: Detect data fabrication using Benford’s Law (first digit analysis) When to use: Data quality assessment, fraud detection, validating research data integrity Files:
categorize (1 file)
Purpose: Convert continuous variables into categorical bins/groups When to use: Age groups, biomarker cutoffs, clinical staging, risk stratification Files:
checkdata (1 file)
Purpose: Comprehensive data quality assessment and validation When to use: Before analysis, data cleaning, identifying missing values and outliers Files:
chisqposttest (8 files)
Purpose: Post-hoc pairwise comparisons after significant chi-square test When to use: Multiple group comparisons in contingency tables, identify which groups differ Files:
- chisqposttest_all_features.omv
- chisqposttest_comprehensive.omv
- chisqposttest_null.omv
- chisqposttest_perfect.omv
- chisqposttest_small.omv
- chisqposttest_test.omv
- chisqposttest_test_data.omv
- chisqposttest_weighted.omv
NEW: Kappa Sample Size Functions ✨
Added: January 2025 Location: meddecide menu group Total Files: 9 (.omv files) Total Scenarios: 258 (86 per function)
These three complementary functions provide comprehensive sample size planning for kappa agreement studies:
kappasizeci (3 files) ✨ NEW
Purpose: Sample size for kappa agreement studies (confidence interval/precision approach) When to use: Planning agreement studies, estimating kappa with desired precision, method validation design Approach: “How many subjects needed to estimate kappa within ±X?” Files:
kappasizefixedn (3 files) ✨ NEW
Purpose: Reverse calculation - given fixed n, find lowest detectable kappa When to use: Resource-constrained studies, completed trials, feasibility assessment, QA programs Approach: “What can I detect with my fixed n?” Constraint types: Budget, time, case availability, regulatory, protocol Files:
kappasizepower (3 files) ✨ NEW
Purpose: Sample size for kappa hypothesis testing (power-based approach) When to use: Planning agreement studies with hypothesis tests, comparing kappa to threshold Approach: “How many needed to test κ₁ vs. κ₀ with power X?” Files:
- kappasizepower_relationship_cases.omv
- kappasizepower_scenarios_comprehensive.omv
- kappasizepower_validation_cases.omv
Kappa Test Coverage: 258 scenarios across all functions covering:
- 2-5 outcome categories
- 2-5 raters
- Binary, ordinal, and continuous outcomes
- Small to large sample sizes (n=10 to n=2000)
- Multiple constraint types and clinical domains
Summary by Menu Group
| Menu Group | Functions | Files | Recent Additions |
|---|---|---|---|
| ClinicoPathDescriptives | 14+ | ~50 | - |
| JJStatsPlot | 15+ | ~120 | - |
| OncoPath | 8+ | ~100 | - |
| jsurvival | 10+ | ~140 | - |
| meddecide | 15+ | ~129 | kappasizeci, kappasizefixedn, kappasizepower ✨ |
| Examples/Demo | - | ~415 | - |
Quick Reference: Most Comprehensive Test Coverage
Functions with 15+ test data files (most thoroughly tested):
| Rank | Function | Files | Category | Download All |
|---|---|---|---|---|
| 1 | timeinterval | 24 | jsurvival | Browse |
| 2 | ihcheterogeneity | 21 | OncoPath | Browse |
| 3 | outcomeorganizer | 20 | jsurvival | Browse |
| 4 | singlearm | 18 | jsurvival | Browse |
| 4 | nogoldstandard | 18 | meddecide | Browse |
Document Information
Document Created: 2025-01-07 Total .omv Files: 945 Functions with Test Data: 60+ Repository: github.com/sbalci/ClinicoPathJamoviModule Data Directory: Browse all files
Note: This vignette shows a subset of available test data. For the complete catalog with all 945 files and download links, visit the full documentation.