Skill · em Dados, IA e pesquisa

anndata

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data,…

Procedência

Antes de instalar

6 arquivos · 61,4 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/anndata/.

d=".claude/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.claude/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

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

d=".agents/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.agents/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

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

d=".agents/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.gemini/antigravity-cli/skills/anndata"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/anndata"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/best_practices.md" "$u/references/best_practices.md" \
  -o "$d/references/concatenation.md" "$u/references/concatenation.md" \
  -o "$d/references/data_structure.md" "$u/references/data_structure.md" \
  -o "$d/references/io_operations.md" "$u/references/io_operations.md" \
  -o "$d/references/manipulation.md" "$u/references/manipulation.md" \
  -o "$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.anndata

Prévia do SKILL.md

---
name: anndata
description: This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or inte…
---

# AnnData

## Overview

AnnData is a Python package for handling annotated data matrices, storing experimental measurements (X) alongside observation metadata (obs), variable metadata (var), and multi-dimensional annotations (obsm, varm, obsp, varp, uns). Originally designed for single-cell genomics through Scanpy, it now serves as a general-…

## When to Use This Skill

Use this skill when:
- Creating, reading, or writing AnnData objects
- Working with h5ad, zarr, or other genomics data formats
- Performing single-cell RNA-seq analysis
- Managing large datasets with sparse matrices or backed mode
- Concatenating multiple datasets or experimental batches
- Subsetting, filtering, or transforming annotated data
- Integrating with scanpy, scvi-tools, or other scverse ecosystem tools

## Installation

```bash
uv pip install anndata

# With optional dependencies
uv pip install anndata[dev,test,doc]
```

## Quick Start

### Creating an AnnData object
```python
import anndata as ad
import numpy as np
import pandas as pd

# Minimal creation
…

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