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repodb-query

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UpdatedApril 7, 2026 at 21:05

Query the RepoDB drug repurposing database. Use whenever the user asks about drug-disease associations, drug repurposing candidates, or wants to look up any entity (drug name, indication, DrugBank ID, UMLS CUI, NCT ID) in RepoDB.

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QSong-github

QSong-github/DrugClaw

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Software DevelopersComputer and Mathematical Occupations·SOC 15-1252

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6 files

SKILL.md

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name	repodb-query
description	Query the RepoDB drug repurposing database. Use whenever the user asks about drug-disease associations, drug repurposing candidates, or wants to look up any entity (drug name, indication, DrugBank ID, UMLS CUI, NCT ID) in RepoDB.

RepoDB Query Skill

Search RepoDB records by any entity. Auto-detects type by prefix:

Input Pattern	Detected As	Match Logic
`DB00584`	DrugBank ID	exact on `drugbank_id`
`C0020538`	UMLS CUI	exact on `ind_id`
`NCT00001234`	Trial ID	exact on `NCT`
anything else	free text	substring on `drug_name` OR `ind_name`

API

Function	Input	Returns
`load_repodb(path)`	CSV path	DataFrame
`search(df, entity)`	single entity string	DataFrame
`search_batch(df, entities)`	list of entity strings	dict[str, DataFrame]
`summarize(hits, entity)`	DataFrame + label	compact text
`to_json(hits)`	DataFrame	list[dict]

Usage

See if __name__ == "__main__" block in repodb_query.py for runnable examples covering: drug name, DrugBank ID, UMLS CUI, indication name, batch search, and JSON output.

Data

Source: full.csv (comma or tab separated, auto-detected)
Columns: drug_name, drugbank_id, ind_name, ind_id, NCT, status, phase, DetailedStatus
Path: DATA_PATH variable in repodb_query.py

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name	repodb-query
description	Query the RepoDB drug repurposing database. Use whenever the user asks about drug-disease associations, drug repurposing candidates, or wants to look up any entity (drug name, indication, DrugBank ID, UMLS CUI, NCT ID) in RepoDB.

RepoDB Query Skill

Search RepoDB records by any entity. Auto-detects type by prefix:

Input Pattern	Detected As	Match Logic
`DB00584`	DrugBank ID	exact on `drugbank_id`
`C0020538`	UMLS CUI	exact on `ind_id`
`NCT00001234`	Trial ID	exact on `NCT`
anything else	free text	substring on `drug_name` OR `ind_name`

API

Function	Input	Returns
`load_repodb(path)`	CSV path	DataFrame
`search(df, entity)`	single entity string	DataFrame
`search_batch(df, entities)`	list of entity strings	dict[str, DataFrame]
`summarize(hits, entity)`	DataFrame + label	compact text
`to_json(hits)`	DataFrame	list[dict]

Usage

See if __name__ == "__main__" block in repodb_query.py for runnable examples covering: drug name, DrugBank ID, UMLS CUI, indication name, batch search, and JSON output.

Data

Source: full.csv (comma or tab separated, auto-detected)
Columns: drug_name, drugbank_id, ind_name, ind_id, NCT, status, phase, DetailedStatus
Path: DATA_PATH variable in repodb_query.py