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Example code of touilelhadj/biostat-php

Informations about the package biostat-php

biostat-php

A pure-PHP biostatistics library implementing descriptive, bivariate and multivariate methods for survey-based epidemiological studies — including logistic regression, VIF, Box–Tidwell, GLMM, GEE, MICE and Rubin's pooling.

License: MIT PHP Version Packagist CI Status DOI

📖 Overview

biostat-php brings the analytic side of a cross-sectional epidemiological study to PHP. It implements, in pure PHP and without external dependencies, the same family of statistical methods normally available only in R (stats, car, lme4, geepack, mice) or SPSS.

The library was extracted from a real research instrument — a trilingual data-collection platform used to study adolescent overweight in the Wilaya of Chlef, Algeria — where it ran the 48 pre-registered hypotheses of the underlying master thesis on a low-cost shared-hosting environment that did not allow R or Python.

Every method is cross-checked against R 4.x and IBM SPSS 25; the quantitative comparison is documented in docs/validation-tables.md and exercised by the PHPUnit suite in tests/.

🚀 Installation

Requirements:

⚡ Quick start

More examples — including GLMM and MICE — are in examples/. A complete per-method walkthrough with R-equivalent commands is in docs/usage-examples.md.

🧪 Method catalogue

Family Methods
Descriptive mean, std, median, quantile
2 × 2 tables chi2Test2x2 (with Yates), oddsRatio (with Haldane–Anscombe)
Means tTest (Welch), anova
Correlation pearson, spearman
Binomial binomialTest
Logistic regression logisticRegression, logisticRegressionMulti, hosmerLemeshow
Multiple testing benjaminiHochberg (FDR)
Multicollinearity vif
Logit linearity boxTidwell
Mixed / clustered glmmLogistic (PQL), geeLogistic (Liang–Zeger sandwich)
Missing data mice (PMM + chained Gibbs), rubinPool (Rubin's rules)

Mathematical formulations and bibliographic references for every method are in docs/statistical-methods.md.

✅ Verification

Reference values for every method were computed independently in R 4.3.0 and IBM SPSS 25. The tolerances used in the test suite are:

Family Tolerance
p-values ± 0.01
Odds ratios ± 0.01
Correlation coefficients ± 0.001
Regression coefficients ± 0.05
Variance components (GLMM) ± 0.05

A complete numerical comparison table — R command, R value, PHP value, |Δ| — lives in docs/validation-tables.md.

🧰 Running the tests

📁 Repository layout

📚 Citation

If you use this library in a research publication, please cite it. A machine-readable citation file is provided in CITATION.cff.

Recommended citation

TOUIL, E. (2026). biostat-php: a pure-PHP biostatistics library for survey-based epidemiological studies. Version 1.0.0. https://github.com/Touil-Elhadj/biostat-php

BibTeX

🌍 Real-world use

biostat-php is the analytic engine of the chlef-touilelhadj platform, a trilingual web instrument used to enrol 1 220 adolescents (14–19 years) in the Wilaya of Chlef, Algeria, during the 2025–2026 academic year. All statistical results of the underlying master thesis were produced by this library and independently verified against R 4.x and SPSS 25.

🤝 Contributing

Contributions are welcome — see CONTRIBUTING.md for the development workflow and the statistical-contribution checklist (every new method must ship with a closed-form reference value from R or SPSS plus a PHPUnit assertion).

🛡 Security

To report a vulnerability please follow the procedure in SECURITY.md.

📄 License

Released under the MIT License — © 2026 TOUIL Elhadj.

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