hmdb-database
Installation
SKILL.md
When to Use
- You need to look up a metabolite by common name (e.g., “Caffeine”) and retrieve its HMDB entry data.
- You have an HMDB ID (e.g.,
HMDB0000001) and want to extract standardized chemical/biological/clinical fields for downstream analysis. - You want to build a local, scriptable pipeline to mine the HMDB XML dump instead of manually browsing the website.
- You need to map HMDB identifiers to external resources (e.g., KEGG, PubChem, ChEBI) for integration tasks.
- You are preparing metabolomics datasets and need pathway/enzyme/transporter annotations from HMDB entries.