Fix some doc structure

Author: cybermaggedon

community/index.md

@@ -12,14 +12,14 @@ Join the TrustGraph community and contribute to the project.
 
 ## Community Resources
 
-- **[Contributing](contributing.md)** - How to contribute to TrustGraph
-- **[Code of Conduct](code-of-conduct.md)** - Community guidelines
-- **[Support](support.md)** - Getting help and support
-- **[Roadmap](roadmap.md)** - Project roadmap and future plans
-- **[Changelog](changelog.md)** - Release notes and changes
+- **[Contributing](contributing/)** - How to contribute to TrustGraph
+- **[Code of Conduct](code-of-conduct/)** - Community guidelines
+- **[Support](support/)** - Getting help and support
+- **[Roadmap](roadmap/)** - Project roadmap and future plans
+- **[Changelog](changelog/)** - Release notes and changes
 
 ## Getting Involved
 
 We welcome contributions! Start by reading our [Contributing Guidelines](contributing.md) and [Code of Conduct](code-of-conduct.md).
 
-Coming soon - community resources and contribution guides!
+Coming soon - community resources and contribution guides!

deployment/index.md

@@ -12,19 +12,25 @@ Deploy TrustGraph on various platforms and environments with these comprehensive
 
 ## Deployment Options
 
-- **[Docker Compose](docker-compose.md)** - Quick local deployment
-- **[Minikube](minikube.md)** - Local Kubernetes deployment
-- **[Google Cloud Platform](gcp.md)** - GCP deployment guide
-- **[Amazon Web Services](aws.md)** - AWS deployment guide
-- **[Scaleway](scaleway.md)** - Scaleway deployment guide
+### Local Development
+- **[Docker Compose](docker-compose/)** - Quick local deployment
+- **[Minikube](minikube/)** - Local Kubernetes deployment
+
+### Cloud Platforms
+- **[Intel GPU / Tiber Cloud](intel/)** - Intel accelerated high-performance deployment
+- **[Azure AKS](azure/)** - Microsoft Azure deployment with AKS
+- **[Google Cloud Platform](gcp/)** - GCP deployment guide
+- **[AWS EC2 Single Instance](aws-ec2/)** - Simple AWS EC2 deployment for development
+- **[Amazon Web Services (RKE)](aws-rke/)** - Production-ready AWS deployment with RKE2
+- **[Scaleway](scaleway/)** - Scaleway deployment guide
 
 ## Best Practices
 
-- **[Production Considerations](production-considerations.md)** - Production best practices
-- **[Troubleshooting](troubleshooting.md)** - Common deployment issues
+- **[Production Considerations](production-considerations/)** - Production best practices
+- **[Security Considerations](security-considerations/)** - Security best practices
+- **[Troubleshooting](troubleshooting/)** - Common deployment issues
 
 ## Getting Started
 
-For quick local testing, start with [Docker Compose](docker-compose.md). For production deployments, review [Production Considerations](production-considerations.md) first.
+For quick local testing, start with [Docker Compose](docker-compose/). For production deployments, review [Production Considerations](production-considerations/) first.
 
-Coming soon - comprehensive deployment guides for all platforms!

getting-started/index.md

@@ -12,9 +12,9 @@ Welcome to TrustGraph! This section will help you get up and running quickly.
 
 ## Quick Start Path
 
-1. **[Installation](installation.md)** - Install TrustGraph on your system
+1. **[Core Concepts](concepts.md)** - Understand key TrustGraph concepts
 2. **[First Steps](first-steps.md)** - Set up your first TrustGraph instance
-3. **[Core Concepts](concepts.md)** - Understand key TrustGraph concepts
+3. **[Installation](installation.md)** - Install TrustGraph on your system
 
 ## What You'll Learn
 
@@ -25,4 +25,4 @@ Welcome to TrustGraph! This section will help you get up and running quickly.
 
 Ready to begin? Start with [Installation](installation.md)!
 
-Coming soon - comprehensive getting started guides!
+Coming soon - comprehensive getting started guides!

index.md

@@ -20,12 +20,6 @@ Learn about TrustGraph's features, architecture, and use cases.
 ### [Deployment](deployment/)
 Deploy TrustGraph on various platforms and environments.
 
-### [API Documentation](api/)
-Complete API reference with examples and best practices.
-
-### [CLI Tools](cli/)
-Command-line interface for managing TrustGraph.
-
 ### [How-to Guides](guides/)
 Step-by-step guides for common tasks and integrations.
 

overview/index.md

@@ -12,8 +12,9 @@ Learn about TrustGraph's capabilities, architecture, and how it can solve your t
 
 ## Topics Covered
 
-- **[Features](features.md)** - Complete feature overview
+- **[Philosophy](philosophy.md)** - Complete feature overview
 - **[Architecture](architecture.md)** - System architecture and design
+- **[Features](features.md)** - Complete feature overview
 - **[Use Cases](use-cases.md)** - Common use cases and applications
 - **[Feature Maturity](feature-maturity.md)** - Feature maturity and roadmap
 
@@ -35,4 +36,4 @@ Traditional AI agents often struggle with hallucinations and lack of context. Tr
 - Creating "Knowledge Packages" that combine Knowledge Graphs with Vector Embeddings
 - Enabling agents to perform contextual reasoning rather than simple pattern matching
 - Providing radical transparency in how AI systems process and understand data
-- Supporting integration with multiple LLMs, vector databases, and graph databases
+- Supporting integration with multiple LLMs, vector databases, and graph databases

reference/apis/README.md reference/apis/index.mdreference/apis/README.md renamed to reference/apis/index.md

@@ -12,16 +12,9 @@ Technical reference materials and specifications for TrustGraph.
 
 ## Reference Materials
 
-- **[Configuration](configuration.md)** - Complete configuration reference
-- **[Environment Variables](environment-variables.md)** - Environment variable reference
-- **[File Formats](file-formats.md)** - Supported file formats
-- **[Query Syntax](query-syntax.md)** - Query language syntax
-- **[Schema Definition](schema-definition.md)** - Graph schema specification
-- **[Similar Systems](similar-systems.md)** - Comparison with other systems
-- **[Glossary](glossary.md)** - Terminology and definitions
+- **[APIs](apis/)** - API documentation and specifications
+- **[CLI](cli/)** - Command-line interface reference
 
 ## Quick Reference
 
-For quick lookups, check the [Glossary](glossary.md) for terminology or [Configuration](configuration.md) for settings.
-
-Coming soon - comprehensive reference documentation!
+For API documentation, see [APIs](apis/). For command-line tools, see [CLI](cli/).