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lamindb

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This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets (scRNA-seq, spatial, flow cytometry, etc.), tracking computational workflows, curating and validating data with biological ontologies, building data lakehouses, or ensuring data lineage and reproducibility in biological research. Covers data management, annotation, ontologies (genes, cell types, diseases, tissues), schema validation, integrations with workflow managers (Nextflow, Snakemake) and MLOps platforms (W&B, MLflow), and deployment strategies.

skills/05-生物信息与基因组学/lamindb/SKILL.md

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# LaminDB

## Overview

LaminDB is an open-source data framework for biology designed to make data queryable, traceable, reproducible, and FAIR (Findable, Accessible, Interoperable, Reusable). It provides a unified platform that combines lakehouse architecture, lineage tracking, feature stores, biological ontologies, LIMS (Laboratory Information Management System), and ELN (Electronic Lab Notebook) capabilities through a single Python API.

**Core Value Proposition:**
- **Queryability**: Search and filter datasets by metadata, features, and ontology terms
- **Traceability**: Automatic lineage tracking from raw data through analysis to results
- **Reproducibility**: Version control for data, code, and environment
- **FAIR Compliance**: Standardized annotations using biological ontologies

## When to Use This Skill
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