Exploring the genome with AlphaGenome#
This API provides access to AlphaGenome, Google DeepMind’s unifying model for deciphering the regulatory code within DNA sequences.
AlphaGenome offers multimodal predictions, encompassing diverse functional outputs such as gene expression, splicing patterns, chromatin features, and contact maps (see diagram below). The model analyzes DNA sequences of up to 1 million base pairs in length and can deliver predictions at single base-pair resolution for most outputs. AlphaGenome achieves state-of-the-art performance across a range of genomic prediction benchmarks, including numerous diverse variant effect prediction tasks (detailed in [Avsec et al., 2025]).
The API is offered as a free service for non-commercial use. Query rates vary based on demand – it is well suited for smaller to medium-scale analyses such as analysing a limited number of genomic regions or variants requiring 1000s of predictions, but is likely not suitable for large scale analyses requiring more than 1 million predictions.
Getting started#
You can get started by getting an API key, and following our Quick Start Guide. Please also check out our installation guide, tutorials with comprehensive overviews of plotting, variant scoring and other use cases, and our API reference documentation.
Installation
Install alphagenome locally.
Tutorials
The tutorials walk through example usage of the AlphaGenome model.
API reference
Reference documentation for the alphagenome package.