qsong-github/drugclaw/stitch
Claude Code and agent skill by qsong-github/drugclaw
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Query the STITCH chemical-protein interaction database. Use whenever the user asks about chemical-protein interactions, drug-target binding, compound action modes, or wants to look up any entity (chemical name, STITCH CID, STRING protein ID) in STITCH.
Install
npx vskill@latest install qsong-github/drugclaw/stitchSKILL.md
STITCH Query Skill
Search STITCH for chemical–protein interactions via REST API. Auto-detects input type:
| Input Pattern | Detected As | Example | |
|---|---|---|---|
CIDm00002244 / CIDs00002244 | STITCH chemical ID | direct lookup | |
9606.ENSP00000352121 | STRING protein ID | direct lookup | |
| anything else | free text | resolved via /resolve first |
API
| Function | Input | Returns | |
|---|---|---|---|
resolve(name, species) | chemical / protein name | list[dict] with stringId, preferredName | |
resolve_batch(names, species) | list of names | list[dict] (via /resolveList) | |
get_interactors(id, species, limit, required_score) | single ID | list[dict] with partner IDs + scores | |
get_actions(id, species, limit, required_score) | single ID | list[dict] with mode (activation/inhibition/binding…) | |
get_interactions(ids, species, required_score) | list of IDs | list[dict] pairwise interactions among inputs | |
search(entity, species, limit, required_score) | single entity (any type) | dict with resolved_id, interactors, actions | |
search_batch(entities, species, limit, required_score) | list or comma-separated string | dict[str, dict] | |
summarize(result, entity) | search() result + label | compact text | |
to_json(result) | any result | JSON string |
Key Fields
Interactors — stringId_A, stringId_B, preferredName_A, preferredName_B, score, nscore, fscore, pscore, ascore, escore, dscore, tscore
Actions — stringId_A, stringId_B, preferredName_A, preferredName_B, mode (activation / inhibition / binding / catalysis / reaction / expression / ptmod), action, is_directional, a_is_acting, score
Score Channels
| Abbrev | Meaning | |
|---|---|---|
| nscore | neighborhood (genomic context) | |
| fscore | gene fusion | |
| pscore | phylogenetic co-occurrence | |
| ascore | co-expression | |
| escore | experimental evidence | |
| dscore | curated database evidence | |
| tscore | text mining | |
| score | combined score (0–1000; 400=medium, 700=high, 900=highest) |
Usage
See if __name__ == "__main__" block in 45_STITCH.py for runnable examples covering: free-text name, STITCH CID, batch search, and JSON output.
Data Source
- Provider: STITCH / STRING Consortium (EMBL, CPR, SIB, KU)
- Primary URL:
http://stitch.embl.de/api - Fallback URL:
https://string-db.org/api(STITCH data merged into STRING 12+) - Auth: None (public API; rate-limited — avoid parallel bulk requests)
- Species: Default 9606 (Homo sapiens); pass NCBI taxonomy ID for other organisms
Security
- Security scanPassed, 95 of 100Pattern checks on the skill's files.
- Model reviewPassed
Quality evaluation
- Task evaluationNot runNo evaluation yet. Run one in Skill Studio.
Source
- SKILL.md in the repositoryCheckingskills/dti/stitch/SKILL.md
Popularity
- Repository stars
- 116
- Repository forks
- 3
- 7-day trend score
- 24
Stars and forks are for the whole GitHub repository, not this skill alone. Not refreshed yet.
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