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<h1 id="cortexgraph">CortexGraph<a class="headerlink" href="#cortexgraph" title="Permanent link">¶</a></h1>
<p><strong>Memory persistence for AI assistants with temporal decay</strong></p>
<p><a href="https://github.com/prefrontal-systems/cortexgraph/actions/workflows/tests.yml"><img alt="Tests" src="https://github.com/prefrontal-systems/cortexgraph/actions/workflows/tests.yml/badge.svg" /></a>
<a href="https://codecov.io/gh/prefrontal-systems/cortexgraph"><img alt="codecov" src="https://codecov.io/gh/prefrontal-systems/cortexgraph/branch/main/graph/badge.svg" /></a>
<a href="https://github.com/prefrontal-systems/cortexgraph/actions/workflows/security.yml"><img alt="Security" src="https://github.com/prefrontal-systems/cortexgraph/actions/workflows/security.yml/badge.svg" /></a>
<a href="https://opensource.org/licenses/MIT"><img alt="License: MIT" src="https://img.shields.io/badge/License-MIT-yellow.svg" /></a>
<a href="https://www.python.org/downloads/"><img alt="Python 3.10+" src="https://img.shields.io/badge/python-3.10+-blue.svg" /></a></p>
<h2 id="what-is-cortexgraph">What is CortexGraph?<a class="headerlink" href="#what-is-cortexgraph" title="Permanent link">¶</a></h2>
<p>CortexGraph is a <strong>Model Context Protocol (MCP)</strong> server that gives AI assistants like Claude a memory system with:</p>
<ul>
<li><strong>Short-term memory (STM)</strong> with temporal decay (like human working memory)</li>
<li><strong>Long-term memory (LTM)</strong> for permanent storage in Obsidian-compatible Markdown</li>
<li><strong>Knowledge graph</strong> with entities, relations, and context tracking</li>
<li><strong>Natural language activation</strong> (v0.6.0+) - Conversational memory without explicit commands</li>
<li><strong>Smart consolidation</strong> to merge related memories</li>
<li><strong>13 MCP tools</strong> and <strong>7 CLI commands</strong></li>
</ul>
<h3 id="why-cortexgraph">Why CortexGraph?<a class="headerlink" href="#why-cortexgraph" title="Permanent link">¶</a></h3>
<p>🔒 <strong>Privacy First</strong>: All data stored locally on your machine - no cloud, no tracking, no data sharing</p>
<p>📁 <strong>Human-Readable</strong>:
- Short-term memory in JSONL format (one JSON object per line)
- Long-term memory in Markdown with YAML frontmatter
- Both formats are easy to inspect, edit, and version control</p>
<p>🎯 <strong>Full Control</strong>: Your memories, your files, your rules</p>
<h2 id="quick-start">Quick Start<a class="headerlink" href="#quick-start" title="Permanent link">¶</a></h2>
<h3 id="installation">Installation<a class="headerlink" href="#installation" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-0-1" name="__codelineno-0-1" href="#__codelineno-0-1"></a><span class="c1"># Recommended: UV tool install</span>
<a id="__codelineno-0-2" name="__codelineno-0-2" href="#__codelineno-0-2"></a>uv<span class="w"> </span>tool<span class="w"> </span>install<span class="w"> </span>git+https://github.com/prefrontal-systems/cortexgraph.git
</code></pre></div>
<h3 id="configuration">Configuration<a class="headerlink" href="#configuration" title="Permanent link">¶</a></h3>
<p>Create <code>~/.config/cortexgraph/.env</code>:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-1-1" name="__codelineno-1-1" href="#__codelineno-1-1"></a><span class="c1"># Storage</span>
<a id="__codelineno-1-2" name="__codelineno-1-2" href="#__codelineno-1-2"></a><span class="nv">CORTEXGRAPH_STORAGE_PATH</span><span class="o">=</span>~/.config/cortexgraph/jsonl
<a id="__codelineno-1-3" name="__codelineno-1-3" href="#__codelineno-1-3"></a>
<a id="__codelineno-1-4" name="__codelineno-1-4" href="#__codelineno-1-4"></a><span class="c1"># Decay model (power_law | exponential | two_component)</span>
<a id="__codelineno-1-5" name="__codelineno-1-5" href="#__codelineno-1-5"></a><span class="nv">CORTEXGRAPH_DECAY_MODEL</span><span class="o">=</span>power_law
<a id="__codelineno-1-6" name="__codelineno-1-6" href="#__codelineno-1-6"></a><span class="nv">CORTEXGRAPH_PL_HALFLIFE_DAYS</span><span class="o">=</span><span class="m">3</span>.0
<a id="__codelineno-1-7" name="__codelineno-1-7" href="#__codelineno-1-7"></a>
<a id="__codelineno-1-8" name="__codelineno-1-8" href="#__codelineno-1-8"></a><span class="c1"># Long-term memory</span>
<a id="__codelineno-1-9" name="__codelineno-1-9" href="#__codelineno-1-9"></a><span class="nv">LTM_VAULT_PATH</span><span class="o">=</span>~/Documents/Obsidian/Vault
</code></pre></div>
<h3 id="claude-desktop-setup">Claude Desktop Setup<a class="headerlink" href="#claude-desktop-setup" title="Permanent link">¶</a></h3>
<p>Add to <code>~/Library/Application Support/Claude/claude_desktop_config.json</code>:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-2-1" name="__codelineno-2-1" href="#__codelineno-2-1"></a><span class="p">{</span>
<a id="__codelineno-2-2" name="__codelineno-2-2" href="#__codelineno-2-2"></a><span class="w"> </span><span class="nt">"mcpServers"</span><span class="p">:</span><span class="w"> </span><span class="p">{</span>
<a id="__codelineno-2-3" name="__codelineno-2-3" href="#__codelineno-2-3"></a><span class="w"> </span><span class="nt">"cortexgraph"</span><span class="p">:</span><span class="w"> </span><span class="p">{</span>
<a id="__codelineno-2-4" name="__codelineno-2-4" href="#__codelineno-2-4"></a><span class="w"> </span><span class="nt">"command"</span><span class="p">:</span><span class="w"> </span><span class="s2">"/Users/yourusername/.local/bin/cortexgraph"</span>
<a id="__codelineno-2-5" name="__codelineno-2-5" href="#__codelineno-2-5"></a><span class="w"> </span><span class="p">}</span>
<a id="__codelineno-2-6" name="__codelineno-2-6" href="#__codelineno-2-6"></a><span class="w"> </span><span class="p">}</span>
<a id="__codelineno-2-7" name="__codelineno-2-7" href="#__codelineno-2-7"></a><span class="p">}</span>
</code></pre></div>
<p><strong>Find your path:</strong>
<div class="highlight"><pre><span></span><code><a id="__codelineno-3-1" name="__codelineno-3-1" href="#__codelineno-3-1"></a>which<span class="w"> </span>cortexgraph
</code></pre></div></p>
<p>Use the full path from that command. GUI apps don't see shell PATH, so absolute paths work best.</p>
<p>Restart Claude Desktop and you're ready!</p>
<h2 id="features">Features<a class="headerlink" href="#features" title="Permanent link">¶</a></h2>
<h3 id="temporal-decay">🧠 Temporal Decay<a class="headerlink" href="#temporal-decay" title="Permanent link">¶</a></h3>
<p>Memories fade over time unless reinforced through repeated access:</p>
<ul>
<li><strong>Power-law decay</strong> (default): Realistic forgetting curve matching human memory</li>
<li><strong>Exponential decay</strong>: Traditional time-based forgetting</li>
<li><strong>Two-component decay</strong>: Fast + slow decay for short/long term</li>
</ul>
<h3 id="knowledge-graph">🔗 Knowledge Graph<a class="headerlink" href="#knowledge-graph" title="Permanent link">¶</a></h3>
<p>Build a graph of connected concepts:</p>
<ul>
<li><strong>Entities</strong>: People, projects, concepts</li>
<li><strong>Relations</strong>: Explicit links between memories</li>
<li><strong>Context tracking</strong>: Understand relationships over time</li>
</ul>
<h3 id="smart-consolidation">🤝 Smart Consolidation<a class="headerlink" href="#smart-consolidation" title="Permanent link">¶</a></h3>
<p>Automatically detect and merge similar memories:</p>
<ul>
<li><strong>Duplicate detection</strong>: Near-duplicates → keep longest</li>
<li><strong>Content merging</strong>: Related but distinct → combine with separation</li>
<li><strong>Metadata preservation</strong>: Tags, entities, timestamps all preserved</li>
<li><strong>Audit trail</strong>: Track consolidation history</li>
</ul>
<h3 id="unified-search">📊 Unified Search<a class="headerlink" href="#unified-search" title="Permanent link">¶</a></h3>
<p>Search across both STM and LTM:</p>
<ul>
<li><strong>Temporal ranking</strong>: Recent memories weighted higher</li>
<li><strong>Semantic similarity</strong>: Optional embedding-based search</li>
<li><strong>Entity matching</strong>: Find related concepts</li>
<li><strong>Tag filtering</strong>: Narrow results by category</li>
</ul>
<h3 id="natural-language-activation-v060">💬 Natural Language Activation (v0.6.0+)<a class="headerlink" href="#natural-language-activation-v060" title="Permanent link">¶</a></h3>
<p>Conversational memory without explicit commands:</p>
<ul>
<li><strong>Auto-enrichment</strong>: Automatic entity extraction and importance scoring</li>
<li><strong>Phrase detection</strong>: "remember this", "what did I say about"</li>
<li><strong>Decision support</strong>: Tools help Claude decide when to save/recall</li>
<li><strong>70-80% reliability</strong>: Realistic MCP architecture ceiling</li>
</ul>
<h2 id="documentation">Documentation<a class="headerlink" href="#documentation" title="Permanent link">¶</a></h2>
<ul>
<li><a href="architecture/">Architecture</a> - System design and components</li>
<li><a href="api/">API Reference</a> - All 13 MCP tools documented (v0.6.0+)</li>
<li><a href="graph_features/">Knowledge Graph</a> - Entity and relation system</li>
<li><a href="scoring_algorithm/">Scoring Algorithm</a> - How temporal decay works</li>
<li><a href="conversational-activation-plan/">Natural Language Activation</a> - Phase 1 implementation guide</li>
<li><a href="deployment/">Deployment Guide</a> - Production setup</li>
</ul>
<h2 id="contributing">Contributing<a class="headerlink" href="#contributing" title="Permanent link">¶</a></h2>
<p>Contributions welcome! See <a href="CONTRIBUTING/">CONTRIBUTING.md</a> for guidelines.</p>
<h2 id="license">License<a class="headerlink" href="#license" title="Permanent link">¶</a></h2>
<p>MIT License - see <a href="LICENSE/">LICENSE</a> for details.</p>
<h2 id="status">Status<a class="headerlink" href="#status" title="Permanent link">¶</a></h2>
<p>✅ <strong>v1.0.0 Released</strong> (2025-10-09)</p>
<p>See <a href="ROADMAP/">ROADMAP.md</a> for upcoming features.</p>
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