Individual skill
alphagenome
Looks up precomputed AlphaGenome Atlas effects for any GRCh38 single-nucleotide variant (AVI score with Phred and 18 SHAP feature attributions, plus raw and quantile scores for RNA-seq, DNase, ATAC, ChIP-TF, ChIP-histone, CAGE, PRO-cap, splicing, polyadenylation and contact-map tracks), scores variants or scans windows on demand with the AlphaGenome model for human and mouse (variant scoring, in silico mutagenesis, REF-versus-ALT track prediction), and builds Atlas website deep links. Use when the user mentions AlphaGenome, AlphaGenome Atlas, AVI or AlphaGenome Variant Impact, DeepMind variant effect prediction, or wants to prioritise or mechanistically interpret non-coding, regulatory, splicing, enhancer, promoter, or chromatin-accessibility effects of SNVs from a VCF, credible set, or region. Research use only; not a clinical tool.
skills/alphagenome/SKILL.md
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- Last checked
- Nov 10, 2026
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- Repository last updated
- Nov 9, 2026
- License
- MIT
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# AlphaGenome and the AlphaGenome Atlas
AlphaGenome is DeepMind's sequence-to-function model: 1 Mb of DNA in,
predictions at modality-specific resolutions for eleven assay types across
thousands of human and mouse tracks out. The **AlphaGenome Atlas** (released 2026-09-08) is that model run once over
every possible single-nucleotide change in GRCh38, about 9 billion variants,
stored with a single ranking number, the **AlphaGenome Variant Impact (AVI)**
score, its genome-wide percentile, and an 18-way attribution of what drives it.
Both are reached through one `pip install alphagenome` and one API key.
> Research and theoretical modelling only. API outputs must not be used to train
> other models, and are not for diagnostic procedures or medical decisions.
> Permissive-use downloads have separate terms; check the artifact licence.
