AutoZyme docs
AutoZyme is two things: a library of drop-in accelerators for scientific computing packages (scanpy, Seurat, inferCNV, CellChat, …) and a framework for writing your own. Pick the path that matches what you want to do.
1. Just want speed? You install autozyme, call activate(“scanpy”), and your existing pipeline runs faster. → Quickstart · Usage guide · Patch catalog
2. Want to accelerate something for yourself? Hit a slow function in your own work? An autonomous multi-agent pipeline produces a working patch in your local checkout: you paste one prompt per phase into a coding agent. → How the pipeline works · Start at Task setup
↳ Built something good? If it helps others, the contribute flow packages the patch and opens the PR for you in one paste — you get credited on every release. → How to contribute · Credit & citation
Two audiences
| You are | Read |
|---|---|
| A scientist using scanpy / Seurat / etc. | Quickstart |
| A developer speeding up your own code | Building a patch → optionally contribute it back |
Where to next
- New to AutoZyme? → Quickstart
- Using AutoZyme in a real pipeline? → Usage guide
- Want to know what is accelerated? → Patch catalog
- Hitting a snag? → Troubleshooting (short checklist)
- Building a patch? → Framework overview
- Contributing a finished patch back? → How to contribute
- Need the function reference? → Python API · R API ·
zymeCLI