CGmedica Plugins

Purpose. Reproducible repository for antisense oligo (ASO) gapmers delivered by LNPs via the nasal route with nose→BBB→microglia targeting. Includes receptor-interaction analyses (TLR3, TfR1, TREM2), ** setup, dosage planning, and ready-to-publish figures.

REPO_NAME= wget https://github.com/burcuner/CGMedica/releases/tag/CGMedica

ROOT = f"/mnt/data/Plugins-custom" os.makedirs(ROOT,exist_ok=True)`

def w(path, content, binary=False):
full = os.path.join(ROOT, path)
os.makedirs(os.path.dirname(full), exist_ok=True)
mode = "wb" if binary else "w"
with open(full, mode) as f:
f.write(content)

## Project explanation (what’s inside and why)

• data/ — ASO sequences and dosing metadata. Version-controlled plain text (YAML).
• scripts/ — small, tested utilities. Start with dosage_planner.py (computes µg and µL per nostril from mg/kg or mg/day).
• simulation/ — reproducible inputs for docking/MD/CG. Keep large outputs under Git LFS.
• analysis/ — notebooks and generated figures; keep raw trajectories out of Git history.
• docs/ — methods (pH/electrostatics equations) and workflow/overview figures for communication.
• RELEASE_NOTES/ — change-log per semantic version; use Git tags to publish releases.
• .github/workflows/ — CI (Black+Flake8+PyTest) for quick quality checks on PRs.

✅ Dual-license: source code under MIT; documents/figures under CC BY 4.0 (see LICENSE and LICENSE-DOCS).

Quick start

# create a new GitHub repo (web), copy its URL
git init
git add .
git commit -m "Initial: {CGMedica} scaffold with CI and docs"
git branch -M main
git remote add origin <https://github.com/burcuner/CGMedica/releases/tag/CGMedica>
git push -u origin `main`

ASO and CSF1R interactions

GitHub repository with our ASO/LNP project structure,

This repository includes minimal, reproducible repo for antisense oligo (ASO) gapmers delivered via lipid nanoparticles (LNPs) through the nasal route, including receptor interaction analyses (TLR3, TfR1, TREM2), pH setup, dosage planning, and figures.

Top-level files

readme = """# ASO–LNP Nose-to-Brain Study

Contents

• data/ — ASO sequences & dosing metadata
• scripts/ — utilities (dosage planner, charge calc template)
• simulation/ — docking/MD/CG placeholders & parameters
• analysis/ — notebooks and generated figures
• docs/ — methods/equations file and workflow figures
• RELEASE_NOTES/ — versioned release notes
• .gitattributes — Git LFS patterns for large sim files

Quick start

git init
git add .
git commit -m "Initial: scaffold for ASO–LNP nasal study"
git branch -M main
git remote add origin 
git push -u origin main