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Resolve HPO Cross-Reference

resolve_xref
Read-onlyIdempotent

Resolve external cross-references (UMLS, SNOMED, NCIT, etc.) to HPO terms. Returns matched terms and pagination details.

Instructions

Resolve an external cross-reference CURIE (UMLS/SNOMEDCT_US/NCIT/MEDDRA/ICD-10/ICD-9/MONDO/DOID/ORPHA) back to the HPO term(s) that cross-reference it. Returns matches[] plus a pagination block {total, returned, limit, offset, truncated, next_offset}; when truncated, next_commands carries a forward-page step (offset). Signature: resolve_xref(xref_id, limit=, offset=, response_mode=).

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
limitNoMax matches (default 25).
offsetNoRows to skip for forward paging (default 0).
xref_idYesAn external cross-reference CURIE (prefix:local), e.g. UMLS/SNOMED/NCIT/MEDDRA, to resolve back to the HPO term(s) that cross-reference it.
response_modeNoVerbosity: minimal|compact|standard|full (default compact).compact
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Annotations declare readOnly, idempotent, non-destructive; description adds pagination behavior with next_commands and truncated flag, going beyond annotations.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences: purpose, return structure, signature. Front-loaded and no verbosity, though could be slightly more compact.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Description explains return format (matches, pagination, next_commands) but does not specify the structure of each match (e.g., HPO term object). No output schema, so more detail would help.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 100%, so baseline 3; description adds little beyond listing the signature and mentioning pagination, but no extra semantic detail for parameters.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool resolves an external CURIE to HPO terms, listing allowed prefixes. It distinguishes from siblings like resolve_term (HPO ID to term) and map_cross_ontology (other mappings).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The context is clear (use when you have an external CURIE and need HPO terms), but no explicit when-not or alternatives are mentioned among the 17 siblings.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

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