Integrations

Agent harnesses docs

• Claude Code db 2.8

• GitHub Copilot db 2.9

• Cursor db 2.11

• Codex db 2.12

Storage docs

Read & write:

• Local file systems

• AWS S3

• S3-compatible storage services, e.g., MinIO & Cloudflare R2

• Google Cloud Storage

Read only:

• http/https

• Hugging Face

Ontologies & registries

• bionty: Biological ontologies, with easy import from >20 public ontologies

• pertdb: Registries for perturbations (compounds, biologics, genetic interventions, etc.)

Git docs

Auto-sync code with git.

Note taking

• Notion → docs

• Obsidian → see below

• VSCode → see below

Organizing markdown notes in the development directory.

Place your notes into folders in your development directory and use your favorite editor to edit them:

To sync a notes file to the database, run:

lamin save <topic>/<my-note.md>

To load a it back, run:

lamin load https://lamin.ai/laminlabs/lamindata/record/mNDJgWFrkWQVW3ox

Computational notebooks docs

You can call ln.track() and ln.finish() (or the R versions) in four notebook types:

• Jupyter

• Marimo

• R markdown

• Quarto

For Jupyter notebooks, source code is stored in .py format and run reports as html.

MLOps

• PyTorch Lightning → lightning

• Weights & Biases → docs

• MLFlow → docs

• Croissant format → docs

• scVI → docs

Workflow managers

• nextflow & seqera.io → nf-lamin

• redun → docs

• prefect, airflow, dagster, etc. → docs

• snakemake → docs

Tables & arrays

• pyarrow & polars: see the engine argument of open() and the arrays guide

• tiledbsoma: inhouse guide or cellxgene

• duckdb: via parquet files, see rxrx

Visualization

• Vitessce: see the vitessce guide

• DataVisyn: reach out for custom visualization solutions

ELN systems

• Benchling: sync schema and data from your registries within our team/enterprise plan