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tooluniverse-functional-genomics-screens

Interpret hits from CRISPR-KO/CRISPRi/shRNA screens by integrating DepMap essentiality, gnomAD constraint scores, pathway context (Reactome, STRING), druggability (DGIdb), and clinical evidence (CIViC, COSMIC). Use for screen-hit prioritization, essentiality ranking, and turning a list of screen hits into a prioritized target shortlist.

74

Quality

91%

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SKILL.md
Quality
Evals
Security

Quality

Content

90%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 efficient, actionable skill body with concrete tooling and a clear phased workflow. Main gap is the absence of explicit validation checkpoints in the main pipeline and no in-bundle progressive file structure.

Suggestions

Add an explicit validation checkpoint between phases (e.g., 'After Phase 1, confirm each hit has ≥1 orthogonal data source before scoring') to strengthen the workflow's feedback loop.

Insert a brief 'verify output' step in Phase 6 (e.g., sanity-check tier distribution, flag any T1 hit lacking clinical evidence) to close the batch-processing loop.

If the cross-skill depmap script is load-bearing, consider noting availability/error handling inline so failure does not stall the workflow.

DimensionReasoningScore

Conciseness

Lean and token-efficient: compact tool signatures, a tight scoring table, and domain-specific guiding principles rather than explanations of concepts Claude already knows; every section earns its place.

5 / 5

Actionability

Provides copy-paste-ready bash commands (e.g. 'python depmap_gene_dependency.py gene KRAS --lineage Lung --top 20') and exact tool-call syntax with parameter names and delimiters, covering the common cases.

5 / 5

Workflow Clarity

A clear six-phase sequence with per-phase fallbacks (gnomAD overloaded retry, gene-not-in-DepMap fallback) and an explicit validate-through-orthogonal-evidence philosophy, but lacks explicit step-level validation checkpoints in the main flow.

4 / 5

Progressive Disclosure

Well-organized into cohesive sections with no content that clearly belongs in a separate bundle file; the single cross-skill script reference is clearly signaled by full path, though no own-bundle reference files exist to demonstrate deeper structuring.

4 / 5

Total

18

/

20

Passed

Description

92%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-triggered description that clearly states both capability and use cases in third person. Only minor room for additional synonyms in the trigger phrasing.

DimensionReasoningScore

Specificity

Lists multiple concrete actions — integrating DepMap essentiality, gnomAD constraint, Reactome/STRING pathways, DGIdb druggability, and CIViC/COSMIC clinical evidence, plus prioritization and shortlist generation — giving comprehensive coverage of capabilities.

5 / 5

Completeness

Explicitly answers what ('Interpret hits... by integrating...') and when ('Use for screen-hit prioritization, essentiality ranking, and turning a list of screen hits into a prioritized target shortlist') with concrete trigger phrases.

5 / 5

Trigger Term Quality

Includes natural domain phrases a user would say ('screen-hit prioritization', 'essentiality ranking', 'CRISPR-KO/CRISPRi/shRNA screens', 'prioritized target shortlist'); a few common synonyms or lay variants are absent, so it sits just below fully comprehensive.

4 / 5

Distinctiveness Conflict Risk

Occupies a clear niche — functional-genomics screen-hit interpretation — with distinct triggers and minimal overlap risk against other skills.

5 / 5

Total

19

/

20

Passed

Validation

100%

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

Validation16 / 16 Passed

Validation for skill structure

No warnings or errors.

Repository
mims-harvard/ToolUniverse
Reviewed

Table of Contents

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