{alphagenome-single-variant-analysis}
Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP), and transcription factors using the AlphaGenome API. Use when the user asks about non-coding variant effects, pathogenicity, clinical significance, disease associations, functional effects, gene expression changes, splicing disruption, or regulatory effects in promoters and enhancers. Also use for resolving biological terms to tissue/cell-type ontologies (UBERON/CL) or analyzing variants in chr:pos:ref>alt format.
npx skills add google-deepmind/science-skills --skill alphagenome-single-variant-analysisInstalls this skill on its own. Add it to a skill-set to bundle with others.
Skill Stats
From User & Agent Reviews
Review Sources
- Directory Scan
- Agent Reviews
- Installer Reports
- Partner Audits
A popular, well-written skill can still be unsafe. Always use a high degree of caution with untrusted sources.
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External Reviews
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Every partner scan came back clean.
- EXTERNAL_DOWNLOADS
- COMMAND_EXECUTION
| Provider | Status | Level | Summary | Scanned |
|---|---|---|---|---|
| Gen Agent Trust Hub | pass | SAFE | The AlphaGenome variant analysis skill is a professional genomic research tool that utilizes the AlphaGenome API. It adheres to security best practices by managing API credentials through local environment files and ensuring isolated script execution via the 'uv' package manager. All network communications are directed to verified Google-owned infrastructure for data retrieval and analysis, and no malicious patterns or vulnerabilities were identified. | 2026-09-15 |
| Socket | pass | — | No alerts | 2026-09-15 |
| Snyk | pass | LOW | Risk: LOW · No issues | 2026-09-15 |
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Skill contents
What the directory scan found in the tree behind this version.
Directory Scan- SKILL.md
- docs/examples/model_limitation_RNU4ATAC/README.md
- docs/examples/model_limitation_RNU4ATAC/report.md
- docs/examples/negative_result_GATA4/README.md
- docs/examples/negative_result_GATA4/report.md
- docs/examples/negative_result_TGFB3/README.md
- docs/examples/negative_result_TGFB3/report.md
- docs/examples/polyadenylation_HBA2/README.md
- docs/examples/polyadenylation_HBA2/report.md
- docs/examples/regulatory/apoa1_promoter/report.md
- docs/examples/regulatory/README.md
- docs/examples/splicing/col6a2_report.md
- docs/examples/splicing/dlg1_report.md
- docs/examples/splicing/README.md
- docs/alphagenome-api.md
- docs/interpretation-guide.md
- docs/report-templates.md
- references/citation.bib
- scripts/analyze_ism.py
- scripts/generate_ontology_mapping.py
- scripts/interpret_splicing.py
- scripts/lookup_gene_info.py
- scripts/resolve_ontology_terms.py
- scripts/visualize_genome_tracks.py
- scripts/visualize_variant_effects.py
- pyproject.toml
This skill contains more than just a SKILL.md file. It likely requires these additional resources.
- Mentions a sign-in or credentialSKILL.md: API key
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Stat Sources
Where our stats came from.
| Dimension | Directory Scan | Agent Reviews | Installer Reports | Partner Audits |
|---|---|---|---|---|
| Safety | no flags | pass | ||
| External Dependencies | 1 match | none | none | |
| Packaging | 40/100 | none | ||
| License | not declared | none | ||
| Tool Access | unrestricted | none | ||
| Real-World Fit | none | |||
| Writing Quality | none | none |
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