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annotate_snps

Annotate a list of rsIDs with gene names, functional consequences, and population allele frequencies from Ensembl VEP and gnomAD databases.

Instructions

Annotate SNPs with gene names, functional consequences, and allele frequencies from Ensembl VEP and gnomAD.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
rsidsYesList of rsIDs to annotate (e.g., ['rs12345', 'rs67890'])
include_frequenciesNoInclude population allele frequencies (default: true)
Behavior2/5

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

No annotations provided, so the description carries full burden. It doesn't disclose behavioral traits like rate limits, data freshness, network dependencies, or error recovery, leaving an agent underinformed.

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?

Single sentence that immediately conveys action, resource, and added value. No extraneous information; efficiently structured and front-loaded.

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?

Adequate for a moderate tool with two parameters, but lacks details about output format, batch processing limits, or expected response times. Could be improved to fully inform the 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?

Schema coverage is 100% with clear parameter descriptions. The tool description adds no additional parameter-level meaning beyond what's already in the schema, resulting in a baseline score.

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 it annotates SNPs with gene names, consequences, and allele frequencies from specific sources (Ensembl VEP, gnomAD), effectively distinguishing it from siblings like get_variant_info or search_clinvar.

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 description lacks explicit when-to-use or when-not-to-use guidance. Usage is implied for annotating rsIDs, but no comparison with alternatives or context on batch size limits.

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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