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mr-scrna-research-planner

Generates complete Mendelian Randomization + single-cell transcriptomics (scRNA-seq) research designs from a user-provided direction. Always use this skill whenever a user wants to design, plan, or build a study combining MR and single-cell data — even if phrased as "help me write a paper on X", "design a bioinformatics study for Y", or "I want to study Z using MR and scRNA". Covers five study patterns (mechanism gene-set, key-cell, candidate-gene reverse validation, exposure-disease-cell triangulation, translational biomarker) and always outputs four workload configs (Lite / Standard / Advanced / Publication+) with recommended primary plan, step-by-step workflow, figure plan, validation strategy, minimal executable version, publication upgrade path, and a strictly verified reference literature retrieval layer with real references only.

Quality

91%

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SKILL.md
Quality
Evals
Security

Quality

Content

85%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 exceptionally well-engineered orchestration skill: sequenced steps with genuine validation gates and fallbacks, copy-paste-ready templates, and a clean one-level-deep reference bundle with no orphan or nested files. The main cost is redundancy — Hard Rules 11–23 largely restate mandates already given in Steps 4.5/5 and Sections C.5/D/I, and the rule list skips number 10 (jumps 9 → 11).

Suggestions

Consolidate the duplicated mandates: fold Hard Rules 11–13 into Step 4.5/Section I, Rules 16–20 into Step 5/Section C.5, and Rule 22 into Section D, keeping a short non-redundant checklist so each rule is stated once authoritatively.

State the never-fabricate-citations rule once (Step 4.5) and have Section I reference it rather than repeating the full rules, trimming roughly 15–20 lines without losing any constraint.

Fix the Hard Rules numbering, which skips 10 (jumps from 9 to 11), so the checklist reads cleanly when used as a final pre-output verification list.

DimensionReasoningScore

Conciseness

The body is dense with task-specific rules rather than concepts Claude already knows, but it could be tightened considerably: the no-fabricated-citations rule is stated three times (Step 4.5, Section I, Hard Rules 11–13), the dependency rules appear in Step 5, Section C.5, and Rules 16–20, and Rule 22 restates Section D's dataset disclaimer verbatim. This lands on the 'mostly efficient but could be tightened' anchor rather than 'noticeably verbose', since the repetition is deliberate compliance emphasis, not filler.

3 / 5

Actionability

For an instruction-only skill the guidance is copy-paste ready: the exact out-of-scope redirect template, the exact "Dataset Disclaimer" line, the pattern/config selection tables, explicit prioritization formulas ("DEG only / DEG ∩ MR-supported genes ∩ colocalized genes"), and a fully enumerated mandatory output structure (Sections A–J with per-section contents). No pseudocode or vague direction remains.

5 / 5

Workflow Clarity

"Execution — 7 Steps (always run in order)" gives a clear sequence with real validation checkpoints: input validation with a redirect-and-stop branch, Step 5's dependency consistency check with a feedback loop ("If any dependency inconsistency is found, revise the plan before outputting"), and fallback handling ("If browsing/search is unavailable... output a search strategy + target evidence map instead"). The 23 Hard Rules double as a final checklist.

5 / 5

Progressive Disclosure

The body is an orchestration overview and every deep detail lives in the bundle: all 8 referenced files (study-patterns.md, workload-configurations.md, literature-retrieval-and-citation.md, workflow-step-template.md, analysis-modules.md, method-library.md, figure-deliverable-plan.md, validation-evidence-hierarchy.md) exist, each is signaled inline at its point of use ("→ Detailed pattern logic: [references/study-patterns.md]"), and no reference file links onward, so references are exactly one level deep with no orphan files.

5 / 5

Total

18

/

20

Passed

Description

95%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 description in third person that explicitly answers both what the skill does and when to use it, with unusually good natural-language trigger paraphrases. Its only weakness is verbosity: the back half catalogues internal structure (five study patterns, four workload configs, retrieval-layer guarantees) that pads rather than aids routing.

DimensionReasoningScore

Specificity

"Generates complete Mendelian Randomization + single-cell transcriptomics (scRNA-seq) research designs" and the output inventory ("recommended primary plan, step-by-step workflow, figure plan, validation strategy, minimal executable version, publication upgrade path") name several concrete actions with comprehensive coverage. It stops short of a 5 because the trailing taxonomy ("exposure-disease-cell triangulation", "a strictly verified reference literature retrieval layer with real references only") is internal jargon padding that adds length without adding user-facing clarity.

4 / 5

Completeness

The "what" is explicit and concrete ("Generates complete... research designs... outputs four workload configs") and the "when" is explicit with concrete trigger phrases ("Always use this skill whenever a user wants to design, plan, or build a study combining MR and single-cell data — even if phrased as..."). Both halves match the top anchor exactly.

5 / 5

Trigger Term Quality

"Always use this skill whenever a user wants to design, plan, or build a study combining MR and single-cell data" is backed by paraphrased natural phrasings ("help me write a paper on X", "design a bioinformatics study for Y", "I want to study Z using MR and scRNA") plus full synonym coverage (Mendelian Randomization, MR, scRNA-seq, single-cell transcriptomics). This matches the comprehensive-synonyms anchor; nothing common is missing.

5 / 5

Distinctiveness Conflict Risk

The MR + scRNA-seq study-design niche is unmistakable and the triggers ("design, plan, or build a study combining MR and single-cell data") would not fire for generic bioinformatics, writing, or PDF skills. Clear niche with distinct triggers and minimal conflict risk.

5 / 5

Total

19

/

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.

Validation — 15 / 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

Path

awesome-med-research-skills/Protocol Design/mr-scrna-research-planner/SKILL.md

Reviewed

Table of Contents

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