- recipe alphagenome
Python SDK for interacting with and visualizing AlphaGenome genomic models
- Homepage:
- Documentation:
- License:
APACHE / Apache-2.0
- Recipe:
AlphaGenome is a unified DNA sequence model from Google DeepMind for regulatory variant-effect prediction. This package provides the Python SDK for interacting with the AlphaGenome API and visualizing predictions across gene expression, splicing, chromatin features, and contact maps.
- package alphagenome¶
- versions:
0.6.0-0,0.5.1-0- depends absl-py:
- depends anndata:
- depends grpcio:
>=1.67.1- depends immutabledict:
- depends intervaltree:
- depends jaxtyping:
- depends matplotlib-base:
- depends ml_dtypes:
- depends numpy:
- depends pandas:
- depends protobuf:
>=5.28.3- depends pyarrow:
- depends python:
>=3.10- depends scipy:
- depends seaborn:
- depends tqdm:
- depends typeguard:
- depends typing-extensions:
- depends zstandard:
- requirements:
- additional platforms:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install alphagenome and update with:: mamba update alphagenome
To create a new environment, run:
mamba create --name myenvname alphagenome
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/alphagenome:<tag> (see `alphagenome/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/alphagenome/README.html)
