Skill · em Dados, IA e pesquisa

string-database

Query STRING API for protein-protein interactions (59M proteins, 20B interactions). Network analysis, GO/KEGG enrichment, interaction discovery, 5000+ species, for systems biology.

Procedência

Antes de instalar

3 arquivos · 42,8 KB · inclui 1 script que executa: scripts/string_api.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/string-database/.

d=".claude/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.claude/skills/string-database/.

d="$HOME/.claude/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

Neste projeto: instala em .agents/skills/string-database/.

d=".agents/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.agents/skills/string-database/.

d="$HOME/.agents/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

Neste projeto: instala em .agents/skills/string-database/.

d=".agents/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

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

d="$HOME/.gemini/antigravity-cli/skills/string-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/string-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/string_reference.md" "$u/references/string_reference.md" \
  -o "$d/scripts/string_api.py" "$u/scripts/string_api.py" \
  -o "$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.string-database

Prévia do SKILL.md

---
name: string-database
description: "Query STRING API for protein-protein interactions (59M proteins, 20B interactions). Network analysis, GO/KEGG enrichment, interaction discovery, 5000+ species, for systems biology."
---

# STRING Database

## Overview

STRING is a comprehensive database of known and predicted protein-protein interactions covering 59M proteins and 20B+ interactions across 5000+ organisms. Query interaction networks, perform functional enrichment, discover partners via REST API for systems biology and pathway analysis.

## When to Use This Skill

This skill should be used when:
- Retrieving protein-protein interaction networks for single or multiple proteins
- Performing functional enrichment analysis (GO, KEGG, Pfam) on protein lists
- Discovering interaction partners and expanding protein networks
- Testing if proteins form significantly enriched functional modules
- Generating network visualizations with evidence-based coloring
- Analyzing homology and protein family relationships
- Conducting cross-species protein interaction comparisons
- Identifying hub proteins and network connectivity patterns

## Quick Start

The skill provides:
1. Python helper functions (`scripts/string_api.py`) for all STRING REST API operations
2. Comprehensive reference documentation (`references/string_reference.md`) with detailed API specifications

When users request STRING data, determine which operation is needed and use the appropriate function from `scripts/string_api.py`.

## Core Operations

### 1. Identifier Mapping (`string_map_ids`)

Convert gene names, protein names, and external IDs to STRING identifiers.

**When to use**: Starting any STRING analysis, validating protein names, finding canonical identifiers.

**Usage**:
…

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