tooluniverse-model-organism-genetics

Cross-species genetic analysis using model organism databases (MGI mouse, ZFIN zebrafish, FlyBase fruit fly, WormBase worm, SGD yeast, RGD rat, GBIF taxonomy). Maps human genes to orthologs, retrieves phenotype/expression/functional data, assesses gene function conservation, and identifies the best animal model for studying a human gene or disease.

Quality

80%

Does it follow best practices?

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Securityby

Low

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tessl review fix ./plugin/skills/tooluniverse-model-organism-genetics/SKILL.md

Quality

Content

77%

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

The body is highly actionable with a clearly sequenced, validated pipeline, but it pads token budget with textbook genetics concepts Claude already knows and keeps everything monolithic in one file. Trimming concept re-explanation and splitting reference material would improve it.

Suggestions

Remove or drastically condense the 'Bacterial and Classical Genetics Reasoning' section, which re-teaches lac/trp operon and three-point-cross concepts Claude already knows.

Move per-organism tool details into one-level-deep reference files (e.g. organism_tools.md) with clearly signaled links from SKILL.md to improve progressive disclosure.

Keep the reasoning principles but trim explanatory preamble to the novel guidance (paralog contamination, phenotype-transfer caveats) rather than restating general genetics theory.

Dimension	Reasoning	Score
Conciseness	Mostly efficient with dense tool-call lists, but the 'Bacterial and Classical Genetics Reasoning' section explains textbook concepts (lac/trp operon attenuation, three-point crosses, cotransduction) Claude already knows, matching the score-2 anchor of mostly efficient with some unnecessary explanation.	2 / 3
Actionability	Provides fully specified, copy-paste-ready tool invocations with parameters and example values throughout (e.g. `MGI_get_phenotypes(gene_id="MGI:XXXXXXX", limit=50)`), matching the score-3 anchor of executable, specific examples.	3 / 3
Workflow Clarity	Clearly sequenced Phase 0–7 pipeline with numbered steps and a final 'Completeness Checklist' serving as an explicit verification loop, matching the score-3 anchor of clear sequence with validation checkpoints.	3 / 3
Progressive Disclosure	No bundle files exist and all content is inline in a 264-line single file; sections are well organized but content that could be split (per-organism tool details, bacterial genetics reasoning) is not separated, matching the score-2 anchor rather than the poorly-organized score-1 case or the simple-skill score-3 exception (which requires under 50 lines).	2 / 3
	Total	10 / 12 Passed

Description

82%

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

The description is specific, action-oriented, and occupies a distinct niche, but it omits explicit 'when to use' trigger guidance, which caps completeness at 2. Adding a 'Use when...' clause would raise it.

Suggestions

Append an explicit 'Use when...' clause naming natural triggers, e.g. 'Use when mapping a human gene to model organism orthologs, selecting an animal model for a gene/disease, or retrieving cross-species phenotype/expression data.'

Add a brief 'Not for' disambiguation in the description itself (not only the body) to further reduce conflict with the variant/drug-target/disease skills.

Dimension	Reasoning	Score
Specificity	Lists multiple concrete actions — 'Maps human genes to orthologs, retrieves phenotype/expression/functional data, assesses gene function conservation, and identifies the best animal model' — matching the score-3 anchor of multiple specific concrete actions.	3 / 3
Completeness	Clearly answers 'what' but lacks any 'Use when...' clause or equivalent explicit trigger guidance, which the judging guidelines state caps completeness at 2.	2 / 3
Trigger Term Quality	Covers natural domain terms a genetics user would say — 'model organism', 'ortholog', 'cross-species genetic analysis', 'best animal model' — alongside recognized database names (MGI, ZFIN, FlyBase), giving good coverage rather than only jargon.	3 / 3
Distinctiveness Conflict Risk	Occupies a clearly specialized niche (model organism ortholog genetics across six named databases) that is unlikely to trigger for unrelated skills; not the level below because it is far more specific than 'Works with document files'.	3 / 3
	Total	11 / 12 Passed

Validation

100%

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 — 16 / 16 Passed

Validation for skill structure

No warnings or errors.

Repository: mims-harvard/ToolUniverse
Path: plugin/skills/tooluniverse-model-organism-genetics/SKILL.md
Commit: 089eb8e

Reviewed: about 8 hours ago

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