lncrna-regulatory-network-construction-analysis

Use this bioinformatics data analysis skill to construct a database-driven lncRNA-mRNA regulatory network from target lncRNA and/or gene lists by projecting shared miRNA evidence from local ceRNA reference tables. It does not infer networks from expression matrices.

Quality

91%

Does it follow best practices?

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Adds up to 20 points to the overall score

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Securityby

Passed

No findings from the security scan

Quality

Content

100%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.

An exemplary SKILL.md body: concise, fully actionable, with a clearly sequenced execution model and validation checkpoints, plus well-signaled one-level-deep references to a verified bundle. No meaningful gaps relative to the rubric anchors.

Dimension	Reasoning	Score
Conciseness	Lean and efficient throughout: tables for Arguments, Output Files, and Error Handling replace prose, and there is no padding or explanation of concepts Claude already knows; every section earns its tokens.	5 / 5
Actionability	Fully executable copy-paste Rscript invocations, a complete argument table with types and defaults, concrete input-format examples, and four runnable example workflows covering the common cases.	5 / 5
Workflow Clarity	The numbered Execution Model sequences modes with explicit checkpoints (confirm output_dir/data/lncrna_network.rda exists before visualize, report mode/output/error code after), and Error Handling plus the Out-of-Scope pattern provide clear feedback loops for recovery.	5 / 5
Progressive Disclosure	SKILL.md is a clear overview that offloads detail one level deep via the 'When to Read External Files' table to real, verified references (algorithm.md, troubleshooting.md, cli-guide.md) and the scripts directory; navigation is explicit and shallow.	5 / 5
	Total	20 / 20 Passed

Description

83%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 specific, well-scoped description that names concrete actions and a clear domain, with an explicit anti-trigger that sharply lowers conflict risk. It could be nudged toward a perfect score by adding concrete user-facing trigger phrases and a couple of file extensions.

Suggestions

Add concrete 'Use when the user mentions...' trigger phrases (e.g. ceRNA, sponge, miRNA-mediated lncRNA-mRNA links) to push completeness to the top anchor.

Include relevant file extensions or synonyms a user might naturally say (e.g. '.csv reference tables', 'starbase/miRDB/miRTarBase') to broaden trigger-term coverage.

Dimension	Reasoning	Score
Specificity	Lists multiple concrete actions with a clearly defined domain object: 'construct a database-driven lncRNA-mRNA regulatory network from target lncRNA and/or gene lists by projecting shared miRNA evidence from local ceRNA reference tables'.	5 / 5
Completeness	Gives a clear 'what' (construct a database-driven network by projecting shared miRNA evidence) and an explicit 'Use this...' trigger, but the 'when' is implicit rather than enumerating concrete user phrasings, leaving it just below the fully-explicit anchor.	4 / 5
Trigger Term Quality	Includes natural domain terms (lncRNA, mRNA, miRNA, ceRNA, regulatory network, target gene lists) but omits file extensions and some common synonyms a user might naturally say, so it sits above the midpoint rather than at the top anchor.	4 / 5
Distinctiveness Conflict Risk	Occupies a clear niche (database-driven lncRNA-mRNA projection from local ceRNA tables) reinforced by an explicit anti-trigger ('It does not infer networks from expression matrices'), minimizing overlap with expression-based skills.	5 / 5
	Total	18 / 20 Passed

Validation

93%

Warnings & errors only

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

Validation — 15 / 16 Passed

Validation for skill structure

Criteria	Description	Result
frontmatter_unknown_keys	Unknown frontmatter key(s) found; consider removing or moving to metadata	Warning

	Total	15 / 16 Passed

Repository: aipoch/medical-research-skills
Path: awesome-med-research-skills/Data Analysis/lncrna-regulatory-network-construction-analysis/SKILL.md
Commit: f5ef65b

Reviewed: ~11 hours ago

Table of Contents

Discovery Implementation Validation

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