Skill · em Dados, IA e pesquisa

lamindb

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…

Procedência

Origem: davila7/claude-code-templates
Caminho: cli-tool/components/skills/scientific/lamindb
Versão fixada: 57f899e5394bb8ca166f38eacae8f0853cbfe033
Licença: MIT
Espelhado em 25/09/2026
nenhum download no Claude Code Templates (lido em 25/09/2026)

Antes de instalar

7 arquivos · 86,6 KB · só texto, nenhum script

Instalar na sua CLI

O comando baixa a versão fixada (commit 57f899e) direto da origem, para a pasta que a CLI lê. Precisa de curl (macOS e Linux); no Windows não há comando, porque o Rook Labs é para macOS.

Claude Code

Neste projeto: instala em .claude/skills/lamindb/.

d=".claude/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.claude/skills/lamindb/.

d="$HOME/.claude/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

Neste projeto: instala em .agents/skills/lamindb/.

d=".agents/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.agents/skills/lamindb/.

d="$HOME/.agents/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

Neste projeto: instala em .agents/skills/lamindb/.

d=".agents/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.gemini/antigravity-cli/skills/lamindb/.

d="$HOME/.gemini/antigravity-cli/skills/lamindb"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/lamindb"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/annotation-validation.md" "$u/references/annotation-validation.md" \
  -o "$d/references/core-concepts.md" "$u/references/core-concepts.md" \
  -o "$d/references/data-management.md" "$u/references/data-management.md" \
  -o "$d/references/integrations.md" "$u/references/integrations.md" \
  -o "$d/references/ontologies.md" "$u/references/ontologies.md" \
  -o "$d/references/setup-deployment.md" "$u/references/setup-deployment.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Peça ao Rook

Já usa o Rook Labs? Cole no chat do Rook: instale a skill https://rooklabs.sh/marketplace/cct.lamindb

Prévia do SKILL.md

---
name: lamindb
description: 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 …
---

# 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 Informat…

**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

Use this skill when:

- **Managing biological datasets**: scRNA-seq, bulk RNA-seq, spatial transcriptomics, flow cytometry, multi-modal data, EHR data
- **Tracking computational workflows**: Notebooks, scripts, pipeline execution (Nextflow, Snakemake, Redun)
- **Curating and validating data**: Schema validation, standardization, ontology-based annotation
- **Working with biological ontologies**: Genes, proteins, cell types, tissues, diseases, pathways (via Bionty)
- **Building data lakehouses**: Unified query interface across multiple datasets
- **Ensuring reproducibility**: Automatic versioning, lineage tracking, environment capture
- **Integrating ML pipelines**: Connecting with Weights & Biases, MLflow, HuggingFace, scVI-tools
- **Deploying data infrastructure**: Setting up local or cloud-based data management systems
- **Collaborating on datasets**: Sharing curated, annotated data with standardized metadata

## Core Capabilities

LaminDB provides six interconnected capability areas, each documented in detail in the references folder.

### 1. Core Concepts and Data Lineage

**Core entities:**
- **Artifacts**: Versioned datasets (DataFrame, AnnData, Parquet, Zarr, etc.)
- **Records**: Experimental entities (samples, perturbations, instruments)
…

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