Skip to main content
Ctrl+K
logo

Lamin Docs

Site Navigation

  • Guide
  • Reference
  • Changelog

Site Navigation

  • Guide
  • Reference
  • Changelog

Basics

  • Track data
    • Track files
    • Track in-memory data objects
    • The story of data objects in story & memory
    • Add & delete metadata
    • Track data lineage: Transform & Run
    • Track data in existing storage locations
    • Track folders
  • Query data
    • Query book
  • Model data
    • Core schema
    • Bionty schema
    • Data validation with ORMs

Biology

  • Manage biological knowledge
  • Track feature-level metadata
    • Linking scRNA-seq data against Gene
    • Linking flow cytometry data against CellMarker
  • Track sample-level metadata

Integrations

  • Bionty: Manage ontologies & curate metadata
    • Guide
      • Look up records of species, gene, protein, cell marker
      • Access ontologies: cell type, tissue, disease, phenotype
      • Curate entity identifiers
      • Configuration
      • Extend Bionty
    • API
      • bionty.Gene
      • bionty.Protein
      • bionty.Species
      • bionty.CellLine
      • bionty.CellType
      • bionty.CellMarker
      • bionty.Tissue
      • bionty.Disease
      • bionty.Phenotype
      • bionty.Pathway
      • bionty.Readout
      • bionty.Entity
      • bionty.display_available_versions
      • bionty.display_active_versions
      • bionty.lookup
      • bionty.update_defaults
      • bionty.Ontology
      • bionty.dev
        • bionty.dev.ontology_info
        • bionty.dev.latest_db_version
    • FAQ
      • Frequently asked questions
    • Changelog
  • Track redun workflows
    • Track the redun run
  • Track images for PyTorch

Other topics

  • Setup
    • Setup quickstart
    • Sign up and log in
    • Init an instance
    • Load & close an instance
    • Set storage
    • Configure schema modules
    • Migrate an instance
    • Get info on an instance
    • Delete an instance
  • FAQ
    • Loading relationships: Session
    • Errors for constructing File from data
    • Calling patterns for nb.header and nb.publish
    • Can I ingest the same file twice?
    • Track run inputs
    • Testing LaminDB’s select statements
    • ACID upload of data objects
    • Lazy loading of ORM objects
    • What happens if I forget to setup an instance using the CLI?
  • Architecture
  • Glossary
  • Problems

Setup#

  • Setup quickstart
  • Sign up and log in
  • Init an instance
  • Load & close an instance
  • Set storage
  • Configure schema modules
  • Migrate an instance
  • Get info on an instance
  • Delete an instance

previous

Track images for PyTorch

next

Setup quickstart
Documentation
  • LaminDB
  • Bionty
  • nbproject
Social
  • Twitter
  • GitHub
  • LinkedIn
Made with 🤔 & ❤️ worldwide, HQ Munich.
© 2023 Lamin Labs · Imprint · Contact