# API Reference

This section documents the public API of the `milia_pipeline` package.

## Core Modules

| Module | Description |
|--------|-------------|
| `milia_pipeline.config` | Configuration management, validation, and schema definitions |
| `milia_pipeline.molecules` | Molecular processing, conversion, and feature enrichment |
| `milia_pipeline.transformations` | Graph transformation system with plugin support |
| `milia_pipeline.datasets` | PyTorch Geometric dataset implementations |
| `milia_pipeline.handlers` | Unified dataset handler pattern |
| `milia_pipeline.preprocessing` | Wavefunction data preprocessing |
| `milia_pipeline.descriptors` | Molecular descriptor calculation (400+ descriptors) |
| `milia_pipeline.models` | Model training, evaluation, and deployment |
| `milia_pipeline.plugins` | Plugin system for extensibility |
| `milia_pipeline.cli_manager` | Command-line interface |
| `milia_pipeline.exceptions` | Three-tier exception hierarchy |