Skill · em Dados, IA e pesquisa

gget

CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, genome downloads. For advanced BLAST/batch processing, use biopython. For multi-database integration, use…

Procedência

Antes de instalar

7 arquivos · 95,2 KB · inclui 3 scripts que executam: scripts/batch_sequence_analysis.py, scripts/enrichment_pipeline.py, scripts/gene_analysis.py

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/gget/.

d=".claude/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.claude/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

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

d=".agents/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.agents/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

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

d=".agents/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.gemini/antigravity-cli/skills/gget"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/gget"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/database_info.md" "$u/references/database_info.md" \
  -o "$d/references/module_reference.md" "$u/references/module_reference.md" \
  -o "$d/references/workflows.md" "$u/references/workflows.md" \
  -o "$d/scripts/batch_sequence_analysis.py" "$u/scripts/batch_sequence_analysis.py" \
  -o "$d/scripts/enrichment_pipeline.py" "$u/scripts/enrichment_pipeline.py" \
  -o "$d/scripts/gene_analysis.py" "$u/scripts/gene_analysis.py" \
  -o "$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.gget

Prévia do SKILL.md

---
name: gget
description: "CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, genome downloads. For advanced BLAST/batch processing, use biopython. For multi-database integration, use bioservi…
---

# gget

## Overview

gget is a command-line bioinformatics tool and Python package providing unified access to 20+ genomic databases and analysis methods. Query gene information, sequence analysis, protein structures, expression data, and disease associations through a consistent interface. All gget modules work both as command-line tools …

**Important**: The databases queried by gget are continuously updated, which sometimes changes their structure. gget modules are tested automatically on a biweekly basis and updated to match new database structures when necessary.

## Installation

Install gget in a clean virtual environment to avoid conflicts:

```bash
# Using uv (recommended)
uv uv pip install gget

# Or using pip
uv pip install --upgrade gget

# In Python/Jupyter
import gget
```

## Quick Start

Basic usage pattern for all modules:

```bash
# Command-line
gget <module> [arguments] [options]

# Python
gget.module(arguments, options)
```
…

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