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reactome

reactome-mcp

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by reactome

reactome_query

Query Reactome database objects by stable or database ID to retrieve detailed information. Use an optional attribute to get specific details.

Instructions

Query any Reactome database object by its identifier. Returns detailed information about the object.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
idYesReactome stable ID or database ID
attributeNoSpecific attribute to retrieve (optional)
Behavior2/5

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

No annotations are provided, so the description carries the burden of behavioral disclosure. It mentions 'Returns detailed information' but does not describe the response format, error behavior, or any side effects; being a query tool it is implicitly read-only, but that is not explicit.

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?

Two concise sentences, front-loaded with the action and resource. No redundant filler or repetition of schema details.

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?

For a simple two-parameter tool with full schema coverage this is minimally viable, but the absence of an output schema and lack of any detail about the 'attribute' parameter or return structure leaves some completeness gaps.

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% with descriptions for both parameters, so a baseline of 3 applies. The description reinforces the role of 'id' via 'by its identifier' but adds no extra meaning beyond the schema.

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 uses a specific verb ('Query'), a resource ('Reactome database object'), and a scoping mechanism ('by its identifier'). It clearly states the tool's function, though it does not explicitly differentiate from the similarly generic sibling reactome_get_entity.

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 phrase 'Query any Reactome database object by its identifier' implies when to use it (when you have an ID and want object details), but there is no explicit guidance on when not to use it or how it compares to alternative tools like reactome_get_entity.

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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