Phase 1 (#33)

* chore: Exclude CLAUDE.md from Cargo.toml

* feat: add callgraph module and integrate into main analysis flow

* feat: enhance CLI with new severity filtering and analysis modes

* feat: update CHANGELOG with recent enhancements and fixes to severity filtering and output handling

* feat: implement state-model dataflow analysis for resource lifecycle and auth state

* feat: enhance diagnostic output formatting and add evidence structure

* feat: implement attack surface ranking for diagnostics with scoring and sorting

* feat: add comprehensive documentation for installation, usage, and rules reference

* feat: add multiple language support for command execution and evaluation endpoints

* feat: implement inline suppression for findings using `nyx:ignore` comments

* feat: add confidence levels to AST patterns and update output structure

* feat: implement low-noise prioritization system with category filtering, rollup grouping, and configurable budgets

* feat: bump version to 0.4.0 and update changelog with new features and improvements

* feat: add dead code allowances to various functions in mod.rs and real_world_tests.rs

docs/index.md

@@ -0,0 +1,32 @@
+# Nyx Documentation
+
+Welcome to the Nyx documentation. Nyx is a multi-language static vulnerability scanner built in Rust.
+
+## User Guide
+
+- [Installation](installation.md) — Install via cargo, prebuilt binaries, or from source
+- [Quick Start](quickstart.md) — Your first scan in 60 seconds
+- [CLI Reference](cli.md) — Every flag, subcommand, and option
+- [Configuration](configuration.md) — Config file schema, precedence, custom rules
+- [Output Formats](output.md) — Console, JSON, SARIF; exit codes; evidence fields
+
+## Detector Reference
+
+- [Detector Overview](detectors.md) — How the four detector families work together
+- [Taint Analysis](detectors/taint.md) — Cross-file source-to-sink dataflow tracking
+- [CFG Structural Analysis](detectors/cfg.md) — Auth gaps, unguarded sinks, resource leaks
+- [State Model Analysis](detectors/state.md) — Resource lifecycle and authentication state
+- [AST Patterns](detectors/patterns.md) — Tree-sitter structural pattern matching
+
+## Rule Reference
+
+- [Rule Index](rules/index.md) — How rules are organized
+- [Rust](rules/rust.md) | [C](rules/c.md) | [C++](rules/cpp.md) | [Java](rules/java.md) | [Go](rules/go.md)
+- [JavaScript](rules/javascript.md) | [TypeScript](rules/typescript.md) | [Python](rules/python.md)
+- [PHP](rules/php.md) | [Ruby](rules/ruby.md)
+
+## Contributing
+
+- [Contributing Guide](../CONTRIBUTING.md) — Development setup, adding rules, PR guidelines
+- [Security Policy](../SECURITY.md) — Responsible disclosure
+- [Code of Conduct](../CODE_OF_CONDUCT.md)