Code for the pre-trained reference models uploaded to scvi-hub on HuggingFace.
First, intstall pre-commit from pip and run pre-commit install at the root of the repository.
To run the code, create a conda environment, install snakemake in this environment, then run the following command:
export HF_API_TOKEN=TOKEN_VAL
snakemake --use-conda --cores all --envvars HF_API_TOKEN
from the corresponding reference directory's workflow directory.