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get_xrefs_by_gene

Retrieve external database cross-references for Ensembl genes to connect genomic data with external resources like HGNC or UniProt.

Instructions

Get external references (cross-references) for a gene

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
gene_idYesEnsembl gene stable ID
external_dbNoFilter by external database name (e.g., HGNC, UniProt)
Behavior2/5

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

No annotations are provided, so the description carries the full burden of behavioral disclosure. It states the action ('Get') but does not describe any behavioral traits such as whether it's a read-only operation, potential rate limits, authentication needs, or what the output looks like. This is a significant gap for a tool with no annotation coverage.

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 a single, efficient sentence that directly states the tool's purpose without any unnecessary words. It is appropriately sized and front-loaded, making it easy to parse quickly.

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

Completeness2/5

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

Given the lack of annotations and output schema, the description is incomplete. It does not explain what the tool returns (e.g., format of external references), behavioral aspects, or usage context. For a tool with no structured data beyond the input schema, more detail is needed to be fully helpful to an agent.

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?

The description does not add meaning beyond what the input schema provides. The schema has 100% description coverage for its two parameters ('gene_id' and 'external_db'), clearly documenting them. Since schema coverage is high, the baseline score is 3, as the description does not compensate or enhance parameter understanding.

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

Purpose4/5

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

The description clearly states the verb ('Get') and resource ('external references (cross-references) for a gene'), making the purpose specific and understandable. However, it does not explicitly differentiate from sibling tools like 'get_xrefs_by_name' or 'get_xrefs_by_symbol', which likely serve similar purposes but with different input parameters, so it misses full sibling differentiation.

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 provides no guidance on when to use this tool versus alternatives. It does not mention sibling tools like 'get_xrefs_by_name' or 'get_xrefs_by_symbol', nor does it specify any context, prerequisites, or exclusions for usage, leaving the agent with no usage direction.

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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