Lamindb

If you're wrangling biological datasets (scRNA-seq, spatial, flow cytometry) and need more than a file system, this gives you queryable data with automatic lineage tracking. It's built around artifacts, transforms, and runs, letting you trace any result back to the code and raw data that produced it. The ontology integration through Bionty is solid for standardizing genes, cell types, diseases across datasets. Works with Nextflow, Snakemake, Weights & Biases, the usual suspects. The curation workflow validates schemas before you save anything, which beats discovering broken metadata six months later. Deployed on SQLite locally or PostgreSQL plus S3 for production teams.

Install to Claude Code

npx -y skills add k-dense-ai/scientific-agent-skills --skill lamindb --agent claude-code