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squid-protocol/README.md

Hi, I'm Joe. 👋

I am a tenured Biology Professor and deep-tech systems builder. I translate a decade of academic research and scientific rigor into high-velocity software, custom embedded systems, and distributed hardware automation.

🔭 The Telescope vs. The Microscope

Software engineering is trapped in its own Smith-Waterman era—obsessed with the mathematically perfect but computationally heavy Abstract Syntax Tree (AST).

In many ways, Code can be though of as a living, mutating organism (git history). To analyze it at repository scale, I built blAST (Bypassing LLMs and AST engine) for GitGalaxy. By abandoning the compiler bottleneck and applying deterministic search strategies to code, GitGalaxy maps intent and cognitive load across 50+ languages at over 100,000 lines of code per second. We traded the microscope for a telescope.

🔭 Currently Working On

  • GitGalaxy: An AST-free LLM-free deterministic knowledge graph engine for deep repository intelligence. Designed to map, secure, and modernize enterprise codebases across 50+ languages at extreme velocity.
  • Embedded Systems & Robotics: Engineering custom MicroPython kernels and building distributed hardware automation (including a multi-node Raspberry Pi and Pico network for industrial-scale sorting).
  • Agri-Tech Hardware: Developing passive guardian systems, like solar-powered environmental monitoring stations for agricultural hoop houses.

🛠️ Core Stack & Environment

  • Languages: Python, C/C++ (kernel level), Java Spring Boot
  • Systems: Linux native (Mint Cinnamon, Raspberry Pi OS), robust SSH and server fleet management
  • Hardware: Raspberry Pi 5, Picos, Arduino, custom PCBs, servos, and sensor arrays

⚡ Ask Me About

Translating complex systems—whether that's calculating risk exposures from stoichiometric signatures or modernizing legacy COBOL/JCL architecture into modern frameworks.

🛠️ Core Stack

Python Java C++ MicroPython Linux Mint Raspberry Pi

📊 GitHub Analytics

squid-protocol's GitHub Stats

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  1. gitgalaxy gitgalaxy Public

    An AST-free, LLM-free heuristic knowledge graph engine for deep repository intelligence. Map, secure, and modernize enterprise codebases across 50+ languages at extreme velocity

    Python 15

  2. squid-protocol squid-protocol Public

    Tenured Biology Professor, Ph.D. | Deep-Tech Systems Builder | Creator of blAST engine