graph LR
    A[Input] --> B[Semantic Processing]
    B --> C[Vector Embedding]
    C --> D[Pattern Recognition]
    D --> E[Knowledge Graph]
    E --> F[Output]

# For Claude Desktop
{
  "branch-thinking": {
    "command": "node",
    "args": ["/path/to/tools/branch-thinking/dist/index.js"]
  }
}

# For VSCode
ext install mcp-branch-thinking

# For Cursor
cursor plugin install @mcp/branch-thinking

# For Command Line
npm install -g @mcp/branch-thinking-cli

# For Development
npm install @modelcontextprotocol/server-branch-thinking

# Cursor
/think analyze this problem

# VSCode Copilot
#! branch-thinking: analyze

# Claude
Use branch-thinking to analyze...

# Command Line
na analyze "problem statement"

# Roo
@branch-thinking analyze

# Claude Code
/branch analyze

list                    # Show all thought branches
focus <branchId>        # Switch to specific branch
history [branchId]      # View branch history

semantic-search <query> # Search across thoughts
analyze-branch <id>     # Generate branch analytics
detect-bias <id>        # Check for cognitive biases

na semantic-search "query" [--threshold=0.7] [--max=10]
na multi-hop "start" "end" [--depth=3]
na analyze-clusters [--method=dbscan] [--epsilon=0.5]

na analyze branch-name [--metrics=all]
na track node-id [--window=5]
na detect-bias branch-name [--types=all]

{
  "name": "@modelcontextprotocol/server-branch-thinking",
  "version": "0.2.0",
  "type": "module",
  "bin": {
    "mcp-server-branch-thinking": "dist/index.js"
  },
  "capabilities": {
    "streaming": false,
    "batchProcessing": true,
    "contextAware": true
  }
}

graph TB
    subgraph Frontend["Frontend Layer"]
        direction TB
        UI["User Interface"]
        VIS["Visualization Engine"]
        INT["Platform Integrations"]
    end

    subgraph MCP["MCP Protocol Layer"]
        direction TB
        Server["MCP Server"]
        Transport["Stdio Transport"]
        Protocol["Protocol Handler"]
        Stream["Stream Processor"]
    end

    subgraph Core["Core Processing"]
        direction TB
        BM["Branch Manager"]
        SP["Semantic Processor"]
        BD["Bias Detector"]
        AE["Analytics Engine"]
        RL["Reinforcement Learning"]
        KG["Knowledge Graph"]
    end

    subgraph Data["Data Layer"]
        direction TB
        TB["Thought Branches"]
        TN["Thought Nodes"]
        SV["Semantic Vectors"]
        CR["Cross References"]
        IN["Insights"]
        Cache["Cache System"]
    end

    subgraph Analytics["Analytics Engine"]
        direction TB
        TM["Temporal Metrics"]
        SM["Semantic Metrics"]
        PM["Performance Metrics"]
        BS["Bias Scores"]
        ML["Machine Learning"]
    end

    subgraph Integration["Platform Integration"]
        direction TB
        Claude["Claude API"]
        VSCode["VSCode Extension"]
        Cursor["Cursor Plugin"]
        CLI["Command Line"]
        Roo["Roo Integration"]
    end

    %% Main Data Flow
    Frontend --> MCP
    MCP --> Core
    Core --> Data
    Core --> Analytics
    Integration --> MCP

    %% Detailed Connections
    UI --> VIS
    VIS --> INT
    Server --> Transport
    Transport --> Protocol
    Protocol --> Stream
    BM --> SP
    SP --> BD
    BD --> AE
    AE --> RL
    RL --> KG
    TB --> TN
    TN --> SV
    CR --> IN
    TM --> ML
    SM --> ML
    PM --> ML

    %% Status Styling
    classDef implemented fill:#90EE90,stroke:#333,stroke-width:2px,color:#000;
    classDef inProgress fill:#FFB6C1,stroke:#333,stroke-width:2px,color:#000;
    classDef planned fill:#87CEEB,stroke:#333,stroke-width:2px,color:#000;

    %% Implementation Status
    class UI,Server,Transport,Protocol,BM,SP,BD,AE,TB,TN,SV,CR,Claude,VSCode,Cursor,CLI implemented;
    class VIS,INT,Stream,RL,KG,Cache,TM,SM,PM,Roo inProgress;
    class ML,BS planned;