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54004abe71
Created comprehensive Obsidian vault for managing Research Stack knowledge: Core Structure: - 00-MAP/ - Navigation, Dashboard, Core Concepts, Glossary, Getting Started - 01-LAYERS/ - All 7 USTSM layers (L0-L6) with formal proofs, docs, receipts, hardware - 07-RESEARCH/ - Milestones, Attack Plans, Conjectures, Experiments - 08-TOOLS/ - Templates, Workflows, Scripts - 09-REFERENCES/ - External resources - 10-ARCHIVE/ - Completed items Configuration Files: - .obsidian/app.json - Vault settings - .obsidian/community-plugins.json - Plugin configuration - .obsidian/snippets/research-stack.css - Custom theme with layer colors - .obsidian/plugins/ - Templater, QuickAdd, Dataview settings - .obsidian/workspaces.json - Pre-configured workspaces Templates Created: - Formal Proof - For Lean theorem documentation - Attack Plan - For research initiatives - Milestone - For project milestones - Receipt - For validation receipts - Daily Standup - For daily progress tracking Features: - Dataview dashboard queries for system health - Layer-specific color coding (L0-L6) - Receipt styling and validation status - Graph view customization - QuickAdd commands for rapid note creation - Templater automation with research helpers - Pre-configured workspaces for different activities Documentation: - README.md - Complete vault guide - Getting Started.md - Step-by-step tutorial - Core Concepts.md - Fundamental principles - Glossary.md - Research Stack terminology Burgers 4-Theorem Attack Plan documented: - Energy Dissipation theorem - CFL Stability theorem - Mass Conservation theorem - Complexity Regularization theorem Generated with [Devin](https://cli.devin.ai/docs) Co-Authored-By: Devin <158243242+devin-ai-integration[bot]@users.noreply.github.com>
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812 B
Markdown
37 lines
No EOL
812 B
Markdown
# Layer L2: Biological
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## Overview
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Genetic codes, spiking neurons, and STDP (Spike-Timing-Dependent Plasticity). Biological computing models.
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## Status
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🟡 **Speculative** - Documentation exists, minor Lean implementation
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## Key Components
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### Genetic Code Tables
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- 30+ genetic code implementations
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- Codon-amino acid mapping
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- Alternative genetic codes
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### SpikingDynamics
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- Izhikevich neuron model
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- Action potential simulation
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- Neural network dynamics
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### GenomicCompression
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- DNA-based data compression
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- Genomic information density
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- Biological data storage
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## Formal Proofs
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- [[Genetic Code Universality]]
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- [[Neural Dynamics Stability]]
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## Documentation
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- [[Genetic Code Reference]]
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- [[Neuron Model Specifications]]
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- [[Biological Computing Overview]]
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---
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#layer-L2 #biological #genetic-codes |