feat: Complete TNFR framework expansion and documentation unification

Major additions:
- Academic documentation modernization and unification
- 29 new comprehensive examples (11-39) covering physics, biology, cosmology
- TNFR-Riemann theoretical framework and implementation
- Classical and quantum mechanics correspondence
- Extensive theoretical documentation in theory/ directory
- New physics modules: classical_mechanics.py, quantum_mechanics.py, symplectic.py
- Riemann operator implementation and demo

Documentation improvements:
- Unified academic tone across all documentation
- Eliminated grandilocuent language for professional presentation
- README.md restructured as coherent documentation entry point
- Complete theoretical framework in theory/TNFR_RIEMANN_RESEARCH_NOTES.md
- Comprehensive domain-specific theory documents

Code enhancements:
- Enhanced N-body dynamics with TNFR integration
- Improved type definitions and structure
- New test coverage for classical mechanics

Cleanup:
- Removed outdated benchmark and script files
- Consolidated documentation structure
- Eliminated redundant analysis documents

This represents a major milestone in TNFR development with complete
theoretical framework, extensive practical examples, and unified
professional documentation.

Author: TNFR AI Agent