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reactome-skill

Query the Reactome REST API for pathway content and enrichment analyses; use when you need curated pathway data, reaction details, or overrepresentation results for a gene list.

69

Quality

85%

Does it follow best practices?

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SecuritybySnyk

Passed

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SKILL.md
Quality
Evals
Security

Quality

Content

82%Weight 40%Scale 1-5

Reviews the quality of instructions and guidance provided to agents. Good implementation is clear, handles edge cases, and produces reliable results.

The content is well-structured, actionable, and appropriately split across a script and a reference file with clear navigation. Its main weakness is mild redundancy across sections and a thin reference file that adds little beyond the script.

Suggestions

Consolidate overlapping information between 'Key Features' and 'Implementation Details' so each section adds distinct value and reduces token redundancy.

Expand references/api_reference.md with genuinely useful detail (e.g. key endpoints, request/response shapes, pagination) rather than restating the base URLs already in the script, or remove it and point directly to the official docs.

Add brief guidance on interpreting or sanity-checking the JSON results of each action so users can validate outputs without consulting external docs.

DimensionReasoningScore

Conciseness

The body is mostly efficient and avoids explaining basics Claude already knows, but 'Key Features' and 'Implementation Details' overlap each other and the description; trimming that redundancy would reach 5.

4 / 5

Actionability

Provides copy-paste-ready, executable commands for both common cases (query_content, analyze_identifiers) backed by a real provided script and an install command, matching the fully-executable anchor.

5 / 5

Workflow Clarity

Each CLI action is unambiguous with the install prerequisite shown, but there is no multi-step sequence or validation checkpoint to warrant a 5; no destructive/batch ops are present so the validation cap does not apply.

4 / 5

Progressive Disclosure

A clean overview body points one level deep to a clearly signaled references/api_reference.md and scripts/reactome_tool.py; the minor gap is that api_reference.md is thin and largely redundant with the script's base URLs, keeping it below 5.

4 / 5

Total

17

/

20

Passed

Description

87%Weight 40%Scale 1-5

Based on the skill's description, can an agent find and select it at the right time? Clear, specific descriptions lead to better discovery.

A strong, specific description that clearly conveys both capability and trigger conditions for a narrow bioinformatics domain. It is concise, third-person, and uses natural domain terminology with explicit 'use when' guidance.

DimensionReasoningScore

Specificity

Names the Reactome REST API domain and concrete actions (pathway content queries, enrichment analyses) plus specific outputs (curated pathway data, reaction details, overrepresentation results); stopped at 4 because it lists only two core actions rather than comprehensive coverage.

4 / 5

Completeness

Explicitly states both what ('Query the Reactome REST API for pathway content and enrichment analyses') and when ('use when you need curated pathway data, reaction details, or overrepresentation results for a gene list') with concrete trigger phrases, matching the top anchor.

5 / 5

Trigger Term Quality

Includes natural domain terms users would say ('pathway content', 'enrichment analyses', 'overrepresentation results', 'gene list', 'reaction details') with good coverage; a few common synonyms (e.g. functional enrichment, ORA) are missing, so not a 5.

4 / 5

Distinctiveness Conflict Risk

Reactome is a clear, narrow niche with distinct triggers ('Reactome REST API', 'overrepresentation results for a gene list'), giving minimal overlap risk with other skills.

5 / 5

Total

18

/

20

Passed

Validation

93%

Checks the skill against the spec for correct structure and formatting. All validation checks must pass before discovery and implementation can be scored.

Validation15 / 16 Passed

Validation for skill structure

CriteriaDescriptionResult

frontmatter_unknown_keys

Unknown frontmatter key(s) found; consider removing or moving to metadata

Warning

Total

15

/

16

Passed

Repository
aipoch/medical-research-skills
Reviewed

Table of Contents

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