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mfiume

Omics AI MCP Server

by mfiume

list_tables

Retrieve all tables within a specified genomics data collection to explore available datasets for research analysis.

Instructions

List all tables in a specific collection

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
networkYesNetwork name or URL
collection_slugYesCollection slug name (e.g., 'gnomad', 'virusseq')
access_tokenNoOptional access token for authentication
Behavior2/5

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

With no annotations provided, the description carries the full burden of behavioral disclosure. It states the action but lacks details on permissions (e.g., whether 'access_token' is required for certain networks), output format (e.g., list of table names or full metadata), pagination, or error handling. This leaves significant gaps for a tool with authentication parameters.

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 front-loads the core purpose without unnecessary words. It directly states what the tool does, making it easy to parse and understand 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 output looks like (e.g., a list of table names, JSON objects), how authentication works with the 'access_token', or potential limitations (e.g., rate limits, network-specific behaviors). For a tool with authentication and multiple parameters, more context is needed.

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 description coverage is 100%, so the schema already documents all three parameters ('network', 'collection_slug', 'access_token') with clear descriptions. The description adds no additional meaning beyond implying the tool operates within a collection, which is redundant with the schema. Baseline 3 is appropriate as the schema does the heavy lifting.

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 ('List') and resource ('tables in a specific collection'), making the purpose immediately understandable. However, it does not explicitly differentiate from sibling tools like 'list_collections' or 'get_schema_fields', which might list different resources or provide schema details instead of table names.

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. For example, it does not mention that 'list_collections' should be used first to find collections, or that 'get_schema_fields' is for table details rather than listing tables. There is no context on prerequisites or exclusions.

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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