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Resolve HPO Cross-Reference

resolve_xref
Read-onlyIdempotent

Resolve external cross-references (UMLS, SNOMED, NCIT, etc.) to matching HPO terms. Supports pagination and multiple response modes.

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
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.
limitNoMax matches (default 25).
offsetNoRows to skip for forward paging (default 0).
response_modeNoVerbosity: minimal|compact|standard|full (default compact).compact

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
successNo
_metaNo
error_codeNo
messageNo
retryableNo
recovery_actionNo
fieldNo
allowed_valuesNo
hintNo
candidatesNo
xref_idNo
totalNo
returnedNo
limitNo
offsetNo
next_offsetNo
truncatedNo
matchesNo
hpo_versionNo
Behavior4/5

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

Annotations already indicate read-only, non-destructive, idempotent, and open-world. The description adds behavioral details about pagination (matches[], total, truncated, next_offset, next_commands) that go beyond annotations, though it omits error handling for invalid xref_id.

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

Conciseness5/5

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

The description is concise with four sentences: purpose, return shape, pagination detail, and signature. It is front-loaded and every sentence adds value without redundancy.

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

Completeness4/5

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

Given high schema coverage and presence of an output schema, the description covers purpose, return structure, and pagination well. Minor missing aspects include error responses for invalid input, but overall it is complete for a query tool.

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 the description adds minimal value beyond the schema. It summarizes the signature and pagination behavior, but the schema already documents each parameter with examples and defaults.

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 cross-reference CURIE back to HPO terms, specifying the verb ('resolve') and resource ('HPO term(s)'). It distinguishes from siblings like resolve_term (which likely does the reverse) and map_cross_ontology.

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

Usage Guidelines2/5

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

The description does not provide explicit guidance on when to use this tool versus alternatives such as resolve_term or map_cross_ontology. There is no mention of when-not-to-use or context for selection.

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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