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Prerequisites
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Step 3: Save Your First Memory
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1. Project Setup
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2. Make Decisions
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3. Days Later...
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4. Review Memory Status
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5. Promote to Long-Term
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Search Across STM + LTM
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Maintenance
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<article class="md-content__inner md-typeset">
<a href="https://github.com/prefrontal-systems/cortexgraph/edit/main/docs/quickstart.md" title="Edit this page" class="md-content__button md-icon" rel="edit">
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M10 20H6V4h7v5h5v3.1l2-2V8l-6-6H6c-1.1 0-2 .9-2 2v16c0 1.1.9 2 2 2h4zm10.2-7c.1 0 .3.1.4.2l1.3 1.3c.2.2.2.6 0 .8l-1 1-2.1-2.1 1-1c.1-.1.2-.2.4-.2m0 3.9L14.1 23H12v-2.1l6.1-6.1z"/></svg>
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<h1 id="quick-start">Quick Start<a class="headerlink" href="#quick-start" title="Permanent link">¶</a></h1>
<p>Get up and running with CortexGraph in 5 minutes.</p>
<h2 id="prerequisites">Prerequisites<a class="headerlink" href="#prerequisites" title="Permanent link">¶</a></h2>
<ul>
<li>ā
CortexGraph installed (<a href="../installation/">Installation Guide</a>)</li>
<li>ā
Configuration file created (<a href="../configuration/">Configuration Guide</a>)</li>
<li>ā
Claude Desktop configured with MCP server</li>
</ul>
<h2 id="step-1-verify-installation">Step 1: Verify Installation<a class="headerlink" href="#step-1-verify-installation" title="Permanent link">¶</a></h2>
<p>Check that CortexGraph is ready:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-0-1" name="__codelineno-0-1" href="#__codelineno-0-1"></a><span class="c1"># Check MCP server</span>
<a id="__codelineno-0-2" name="__codelineno-0-2" href="#__codelineno-0-2"></a>cortexgraph<span class="w"> </span>--version
<a id="__codelineno-0-3" name="__codelineno-0-3" href="#__codelineno-0-3"></a>
<a id="__codelineno-0-4" name="__codelineno-0-4" href="#__codelineno-0-4"></a><span class="c1"># Check CLI tools</span>
<a id="__codelineno-0-5" name="__codelineno-0-5" href="#__codelineno-0-5"></a>cortexgraph-search<span class="w"> </span>--help
<a id="__codelineno-0-6" name="__codelineno-0-6" href="#__codelineno-0-6"></a>cortexgraph-maintenance<span class="w"> </span>--help
</code></pre></div>
<h2 id="step-2-start-claude-desktop">Step 2: Start Claude Desktop<a class="headerlink" href="#step-2-start-claude-desktop" title="Permanent link">¶</a></h2>
<p>Restart Claude Desktop to load the CortexGraph MCP server.</p>
<p>Verify CortexGraph is available:
1. Start a new conversation
2. Look for the š icon (MCP tools available)
3. CortexGraph should appear in the available servers</p>
<h2 id="step-3-save-your-first-memory">Step 3: Save Your First Memory<a class="headerlink" href="#step-3-save-your-first-memory" title="Permanent link">¶</a></h2>
<p>In Claude, try:</p>
<blockquote>
<p>"I prefer TypeScript over JavaScript for new projects. Remember this preference."</p>
</blockquote>
<p>Claude will automatically use <code>save_memory</code> to store this information.</p>
<h2 id="step-4-recall-a-memory">Step 4: Recall a Memory<a class="headerlink" href="#step-4-recall-a-memory" title="Permanent link">¶</a></h2>
<p>Later, ask:</p>
<blockquote>
<p>"What are my language preferences?"</p>
</blockquote>
<p>Claude will use <code>search_memory</code> to find and recall your preference.</p>
<h2 id="step-5-view-your-memories">Step 5: View Your Memories<a class="headerlink" href="#step-5-view-your-memories" title="Permanent link">¶</a></h2>
<p>Check what's stored:</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"># Search all memories</span>
<a id="__codelineno-1-2" name="__codelineno-1-2" href="#__codelineno-1-2"></a>cortexgraph-search<span class="w"> </span><span class="s2">"TypeScript"</span>
<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"># View storage statistics</span>
<a id="__codelineno-1-5" name="__codelineno-1-5" href="#__codelineno-1-5"></a>cortexgraph-maintenance<span class="w"> </span>stats
<a id="__codelineno-1-6" name="__codelineno-1-6" href="#__codelineno-1-6"></a>
<a id="__codelineno-1-7" name="__codelineno-1-7" href="#__codelineno-1-7"></a><span class="c1"># See raw JSONL storage</span>
<a id="__codelineno-1-8" name="__codelineno-1-8" href="#__codelineno-1-8"></a>cat<span class="w"> </span>~/.config/cortexgraph/jsonl/memories.jsonl
</code></pre></div>
<h2 id="common-patterns">Common Patterns<a class="headerlink" href="#common-patterns" title="Permanent link">¶</a></h2>
<h3 id="auto-save-important-information">Auto-Save Important Information<a class="headerlink" href="#auto-save-important-information" title="Permanent link">¶</a></h3>
<p>Claude automatically saves when you share:
- Personal preferences
- Project decisions
- Important facts
- Context about your work</p>
<h3 id="auto-recall-context">Auto-Recall Context<a class="headerlink" href="#auto-recall-context" title="Permanent link">¶</a></h3>
<p>Claude automatically searches memory when you:
- Reference past topics
- Ask about previous decisions
- Continue earlier conversations</p>
<h3 id="reinforce-memories">Reinforce Memories<a class="headerlink" href="#reinforce-memories" title="Permanent link">¶</a></h3>
<p>When you revisit information, Claude uses <code>touch_memory</code> to strengthen it, preventing decay.</p>
<h3 id="consolidate-similar-memories">Consolidate Similar Memories<a class="headerlink" href="#consolidate-similar-memories" title="Permanent link">¶</a></h3>
<p>When similar memories accumulate:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-2-1" name="__codelineno-2-1" href="#__codelineno-2-1"></a><span class="c1"># Find clusters</span>
<a id="__codelineno-2-2" name="__codelineno-2-2" href="#__codelineno-2-2"></a>cortexgraph-consolidate<span class="w"> </span>--preview
<a id="__codelineno-2-3" name="__codelineno-2-3" href="#__codelineno-2-3"></a>
<a id="__codelineno-2-4" name="__codelineno-2-4" href="#__codelineno-2-4"></a><span class="c1"># Apply consolidation</span>
<a id="__codelineno-2-5" name="__codelineno-2-5" href="#__codelineno-2-5"></a>cortexgraph-consolidate<span class="w"> </span>--apply
</code></pre></div>
<p>Or let Claude do it automatically when detecting related memories.</p>
<h2 id="example-workflow">Example Workflow<a class="headerlink" href="#example-workflow" title="Permanent link">¶</a></h2>
<h3 id="1-project-setup">1. Project Setup<a class="headerlink" href="#1-project-setup" title="Permanent link">¶</a></h3>
<blockquote>
<p>"I'm starting a new project called 'task-tracker'. It's a Python web app using FastAPI and PostgreSQL."</p>
</blockquote>
<p>Claude saves this as a memory with entities: <code>task-tracker</code>, <code>FastAPI</code>, <code>PostgreSQL</code></p>
<h3 id="2-make-decisions">2. Make Decisions<a class="headerlink" href="#2-make-decisions" title="Permanent link">¶</a></h3>
<blockquote>
<p>"For task-tracker, I've decided to use SQLAlchemy for the ORM and Alembic for migrations."</p>
</blockquote>
<p>Claude saves this decision and links it to the project entity.</p>
<h3 id="3-days-later">3. Days Later...<a class="headerlink" href="#3-days-later" title="Permanent link">¶</a></h3>
<blockquote>
<p>"What decisions did I make for task-tracker?"</p>
</blockquote>
<p>Claude searches memories for <code>task-tracker</code> entity and recalls all related decisions.</p>
<h3 id="4-review-memory-status">4. Review Memory Status<a class="headerlink" href="#4-review-memory-status" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-3-1" name="__codelineno-3-1" href="#__codelineno-3-1"></a><span class="c1"># See all memories related to project</span>
<a id="__codelineno-3-2" name="__codelineno-3-2" href="#__codelineno-3-2"></a>cortexgraph-search<span class="w"> </span><span class="s2">"task-tracker"</span>
<a id="__codelineno-3-3" name="__codelineno-3-3" href="#__codelineno-3-3"></a>
<a id="__codelineno-3-4" name="__codelineno-3-4" href="#__codelineno-3-4"></a><span class="c1"># Check decay scores</span>
<a id="__codelineno-3-5" name="__codelineno-3-5" href="#__codelineno-3-5"></a>cortexgraph-maintenance<span class="w"> </span>stats
</code></pre></div>
<h3 id="5-promote-to-long-term">5. Promote to Long-Term<a class="headerlink" href="#5-promote-to-long-term" title="Permanent link">¶</a></h3>
<p>Important memories automatically promote to LTM when:
- Score >= 0.65 (high value)
- Used 5+ times in 14 days</p>
<p>Or manually promote:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-4-1" name="__codelineno-4-1" href="#__codelineno-4-1"></a><span class="c1"># Find high-value memories</span>
<a id="__codelineno-4-2" name="__codelineno-4-2" href="#__codelineno-4-2"></a>cortexgraph-promote<span class="w"> </span>--dry-run
<a id="__codelineno-4-3" name="__codelineno-4-3" href="#__codelineno-4-3"></a>
<a id="__codelineno-4-4" name="__codelineno-4-4" href="#__codelineno-4-4"></a><span class="c1"># Promote to Obsidian vault</span>
<a id="__codelineno-4-5" name="__codelineno-4-5" href="#__codelineno-4-5"></a>cortexgraph-promote
</code></pre></div>
<h2 id="cli-tools">CLI Tools<a class="headerlink" href="#cli-tools" title="Permanent link">¶</a></h2>
<h3 id="search-across-stm-ltm">Search Across STM + LTM<a class="headerlink" href="#search-across-stm-ltm" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-5-1" name="__codelineno-5-1" href="#__codelineno-5-1"></a><span class="c1"># Basic search</span>
<a id="__codelineno-5-2" name="__codelineno-5-2" href="#__codelineno-5-2"></a>cortexgraph-search<span class="w"> </span><span class="s2">"Python"</span>
<a id="__codelineno-5-3" name="__codelineno-5-3" href="#__codelineno-5-3"></a>
<a id="__codelineno-5-4" name="__codelineno-5-4" href="#__codelineno-5-4"></a><span class="c1"># Filter by tags</span>
<a id="__codelineno-5-5" name="__codelineno-5-5" href="#__codelineno-5-5"></a>cortexgraph-search<span class="w"> </span><span class="s2">"Python"</span><span class="w"> </span>--tags<span class="w"> </span>coding,projects
<a id="__codelineno-5-6" name="__codelineno-5-6" href="#__codelineno-5-6"></a>
<a id="__codelineno-5-7" name="__codelineno-5-7" href="#__codelineno-5-7"></a><span class="c1"># Limit results</span>
<a id="__codelineno-5-8" name="__codelineno-5-8" href="#__codelineno-5-8"></a>cortexgraph-search<span class="w"> </span><span class="s2">"Python"</span><span class="w"> </span>--limit<span class="w"> </span><span class="m">10</span>
</code></pre></div>
<h3 id="maintenance">Maintenance<a class="headerlink" href="#maintenance" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-6-1" name="__codelineno-6-1" href="#__codelineno-6-1"></a><span class="c1"># View statistics</span>
<a id="__codelineno-6-2" name="__codelineno-6-2" href="#__codelineno-6-2"></a>cortexgraph-maintenance<span class="w"> </span>stats
<a id="__codelineno-6-3" name="__codelineno-6-3" href="#__codelineno-6-3"></a>
<a id="__codelineno-6-4" name="__codelineno-6-4" href="#__codelineno-6-4"></a><span class="c1"># Compact storage (remove deleted entries)</span>
<a id="__codelineno-6-5" name="__codelineno-6-5" href="#__codelineno-6-5"></a>cortexgraph-maintenance<span class="w"> </span>compact
<a id="__codelineno-6-6" name="__codelineno-6-6" href="#__codelineno-6-6"></a>
<a id="__codelineno-6-7" name="__codelineno-6-7" href="#__codelineno-6-7"></a><span class="c1"># Full report</span>
<a id="__codelineno-6-8" name="__codelineno-6-8" href="#__codelineno-6-8"></a>cortexgraph-maintenance<span class="w"> </span>report
</code></pre></div>
<h3 id="garbage-collection">Garbage Collection<a class="headerlink" href="#garbage-collection" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-7-1" name="__codelineno-7-1" href="#__codelineno-7-1"></a><span class="c1"># Preview what will be deleted</span>
<a id="__codelineno-7-2" name="__codelineno-7-2" href="#__codelineno-7-2"></a>cortexgraph-gc<span class="w"> </span>--dry-run
<a id="__codelineno-7-3" name="__codelineno-7-3" href="#__codelineno-7-3"></a>
<a id="__codelineno-7-4" name="__codelineno-7-4" href="#__codelineno-7-4"></a><span class="c1"># Delete low-scoring memories</span>
<a id="__codelineno-7-5" name="__codelineno-7-5" href="#__codelineno-7-5"></a>cortexgraph-gc
</code></pre></div>
<h3 id="memory-consolidation">Memory Consolidation<a class="headerlink" href="#memory-consolidation" title="Permanent link">¶</a></h3>
<div class="highlight"><pre><span></span><code><a id="__codelineno-8-1" name="__codelineno-8-1" href="#__codelineno-8-1"></a><span class="c1"># Find similar memory clusters</span>
<a id="__codelineno-8-2" name="__codelineno-8-2" href="#__codelineno-8-2"></a>cortexgraph-consolidate<span class="w"> </span>--preview<span class="w"> </span>--cohesion-threshold<span class="w"> </span><span class="m">0</span>.75
<a id="__codelineno-8-3" name="__codelineno-8-3" href="#__codelineno-8-3"></a>
<a id="__codelineno-8-4" name="__codelineno-8-4" href="#__codelineno-8-4"></a><span class="c1"># Apply consolidation</span>
<a id="__codelineno-8-5" name="__codelineno-8-5" href="#__codelineno-8-5"></a>cortexgraph-consolidate<span class="w"> </span>--apply<span class="w"> </span>--cohesion-threshold<span class="w"> </span><span class="m">0</span>.80
</code></pre></div>
<h2 id="advanced-usage">Advanced Usage<a class="headerlink" href="#advanced-usage" title="Permanent link">¶</a></h2>
<h3 id="custom-decay-parameters">Custom Decay Parameters<a class="headerlink" href="#custom-decay-parameters" title="Permanent link">¶</a></h3>
<p>Edit <code>~/.config/cortexgraph/.env</code>:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-9-1" name="__codelineno-9-1" href="#__codelineno-9-1"></a><span class="c1"># Slower decay (memories last longer)</span>
<a id="__codelineno-9-2" name="__codelineno-9-2" href="#__codelineno-9-2"></a><span class="nv">CORTEXGRAPH_PL_HALFLIFE_DAYS</span><span class="o">=</span><span class="m">7</span>.0
<a id="__codelineno-9-3" name="__codelineno-9-3" href="#__codelineno-9-3"></a>
<a id="__codelineno-9-4" name="__codelineno-9-4" href="#__codelineno-9-4"></a><span class="c1"># Faster decay (more aggressive forgetting)</span>
<a id="__codelineno-9-5" name="__codelineno-9-5" href="#__codelineno-9-5"></a><span class="nv">CORTEXGRAPH_PL_HALFLIFE_DAYS</span><span class="o">=</span><span class="m">1</span>.0
</code></pre></div>
<p>Restart Claude Desktop to apply changes.</p>
<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>
<div class="highlight"><pre><span></span><code><a id="__codelineno-10-1" name="__codelineno-10-1" href="#__codelineno-10-1"></a><span class="c1"># Create explicit relations</span>
<a id="__codelineno-10-2" name="__codelineno-10-2" href="#__codelineno-10-2"></a><span class="n">create_relation</span><span class="p">(</span>
<a id="__codelineno-10-3" name="__codelineno-10-3" href="#__codelineno-10-3"></a> <span class="n">from_id</span><span class="o">=</span><span class="s2">"mem_project_xyz"</span><span class="p">,</span>
<a id="__codelineno-10-4" name="__codelineno-10-4" href="#__codelineno-10-4"></a> <span class="n">to_id</span><span class="o">=</span><span class="s2">"mem_decision_sqlalchemy"</span><span class="p">,</span>
<a id="__codelineno-10-5" name="__codelineno-10-5" href="#__codelineno-10-5"></a> <span class="n">relation_type</span><span class="o">=</span><span class="s2">"has_decision"</span>
<a id="__codelineno-10-6" name="__codelineno-10-6" href="#__codelineno-10-6"></a><span class="p">)</span>
<a id="__codelineno-10-7" name="__codelineno-10-7" href="#__codelineno-10-7"></a>
<a id="__codelineno-10-8" name="__codelineno-10-8" href="#__codelineno-10-8"></a><span class="c1"># Query the graph</span>
<a id="__codelineno-10-9" name="__codelineno-10-9" href="#__codelineno-10-9"></a><span class="n">read_graph</span><span class="p">()</span> <span class="c1"># Get entire graph</span>
<a id="__codelineno-10-10" name="__codelineno-10-10" href="#__codelineno-10-10"></a><span class="n">open_memories</span><span class="p">([</span><span class="s2">"mem_project_xyz"</span><span class="p">])</span> <span class="c1"># Get memory with relations</span>
</code></pre></div>
<h3 id="embeddings-for-semantic-search">Embeddings for Semantic Search<a class="headerlink" href="#embeddings-for-semantic-search" title="Permanent link">¶</a></h3>
<p>Enable in <code>.env</code>:</p>
<div class="highlight"><pre><span></span><code><a id="__codelineno-11-1" name="__codelineno-11-1" href="#__codelineno-11-1"></a><span class="nv">CORTEXGRAPH_ENABLE_EMBEDDINGS</span><span class="o">=</span><span class="nb">true</span>
<a id="__codelineno-11-2" name="__codelineno-11-2" href="#__codelineno-11-2"></a><span class="nv">CORTEXGRAPH_EMBED_MODEL</span><span class="o">=</span>all-MiniLM-L6-v2
</code></pre></div>
<p>Install dependencies:
<div class="highlight"><pre><span></span><code><a id="__codelineno-12-1" name="__codelineno-12-1" href="#__codelineno-12-1"></a>uv<span class="w"> </span>pip<span class="w"> </span>install<span class="w"> </span>sentence-transformers
</code></pre></div></p>
<h2 id="troubleshooting">Troubleshooting<a class="headerlink" href="#troubleshooting" title="Permanent link">¶</a></h2>
<h3 id="no-memories-being-saved">No Memories Being Saved<a class="headerlink" href="#no-memories-being-saved" title="Permanent link">¶</a></h3>
<ol>
<li>Check Claude Desktop logs for MCP errors</li>
<li>Verify <code>.env</code> file exists: <code>cat ~/.config/cortexgraph/.env</code></li>
<li>Check storage directory: <code>ls ~/.config/cortexgraph/jsonl/</code></li>
</ol>
<h3 id="cant-find-memories">Can't Find Memories<a class="headerlink" href="#cant-find-memories" title="Permanent link">¶</a></h3>
<ol>
<li>Check search: <code>cortexgraph-search "keyword"</code></li>
<li>View all: <code>cat ~/.config/cortexgraph/jsonl/memories.jsonl</code></li>
<li>Check decay scores: <code>cortexgraph-maintenance stats</code></li>
</ol>
<h3 id="memory-decay-too-fast">Memory Decay Too Fast<a class="headerlink" href="#memory-decay-too-fast" title="Permanent link">¶</a></h3>
<p>Increase half-life in <code>.env</code>:
<div class="highlight"><pre><span></span><code><a id="__codelineno-13-1" name="__codelineno-13-1" href="#__codelineno-13-1"></a><span class="nv">CORTEXGRAPH_PL_HALFLIFE_DAYS</span><span class="o">=</span><span class="m">7</span>.0<span class="w"> </span><span class="c1"># Increase from 3.0</span>
</code></pre></div></p>
<h2 id="next-steps">Next Steps<a class="headerlink" href="#next-steps" title="Permanent link">¶</a></h2>
<ul>
<li><a href="../api/">API Reference</a> - Learn all 11 MCP tools</li>
<li><a href="../architecture/">Architecture</a> - Understand how CortexGraph works</li>
<li><a href="../graph_features/">Knowledge Graph</a> - Build connected concepts</li>
<li><a href="../scoring_algorithm/">Scoring Algorithm</a> - Deep dive into decay</li>
</ul>
</article>
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