菜单
STRING PPI networks and enrichment via VenusFactory download tools. Use for interaction networks, partners, GO/KEGG enrichment, homology across 5000+ species. Do NOT use for sequence homology search (protein_sequence_similarity_search) or KEGG pathway entries alone (kegg_database).
默认使用会先检查来源的 Prompt；你也可以切换为直接命令，或下载本地副本。
决定是否安装前，请先阅读 SKILL.md，以及 SkillsMP 当前展示的配套文件。
用 Codex 或 Claude 帮你安装 复制这段 Prompt，粘贴到 Codex、Claude 或其他助手里，让它检查 Skill 页面并帮你完成安装。
直接命令不会经过审查 Prompt；运行前请先检查来源。
npx skills add https://github.com/ai4protein/VenusFactory2 --skill string-database命令会保持在同一行。复制前请横向滚动并检查完整内容。
想先保存到本地？可下载 SkillsMP 当前能够提供的文件。
Fine-tune and run custom protein models on VenusFactory (CSV/HF → config → train → predict). Use when the user brings labeled sequences, wants adapter training (ProtT5/ESM2/Ankh/QLoRA notes), or batch inference with a trained config. Do NOT use for zero-shot mutation without labels (zero_shot_mutation_workflow) or built-in function heads already covered by predict_protein_function.
AlphaFold DB structures and confidence analytics via VenusFactory tools. Use when the user needs predicted structures by UniProt ID, pLDDT/PAE analysis, or PDB/mmCIF download. Do NOT use for experimental PDB (rcsb_database), local ESMFold without UniProt (predict_structure_esmfold / protein_structure_pipeline), or sequence annotation (uniprot_database).
arXiv preprint server — keyword search the official API and download papers as PDF / HTML / source tarball. Use whenever the user mentions an arXiv ID (e.g. 2106.04559) or wants preprints on a topic in CS / physics / math / quantitative biology. For biomedical preprints specifically, prefer biorxiv skill.
基于 SOC 职业分类
正在显示 SKILL.md
| name | string_database |
| description | STRING PPI networks and enrichment via VenusFactory download tools. Use for interaction networks, partners, GO/KEGG enrichment, homology across 5000+ species. Do NOT use for sequence homology search (protein_sequence_similarity_search) or KEGG pathway entries alone (kegg_database). |
| license | Unknown |
| metadata | {"version":"1.2","skill-author":"VenusFactory2"} |
Hub exposes download_string_* tools only. Lower-level query_string_* helpers in src/tools/database/string/ are not LangChain tools.
| Tool | Key args | Purpose |
|---|---|---|
| download_string_map_ids | identifiers, out_dir, species (default 9606) | Name → STRING ID |
| download_string_network | identifiers, out_dir, required_score | PPI TSV |
| download_string_network_image | identifiers, out_dir | Network PNG |
| download_string_interaction_partners | identifiers, out_dir, limit | Partners TSV |
| download_string_enrichment | identifiers, out_dir | GO/KEGG/Pfam enrichment |
| download_string_ppi_enrichment | identifiers, out_dir | PPI enrichment JSON |
| download_string_homology | identifiers, out_dir | Homology TSV |
download_string_map_ids (validate gene/protein names)query_string_* as hub toolsspecies taxon (human=9606)Trust order: SKILL.md (hub tools & envelopes) → topic refs → references/legacy_guide.md (archived; may be outdated).
read_skill(skill_id="string_database", relative_path="references/legacy_guide.md")
Load legacy only after the hub workflow in this file is insufficient.