Next, use the environment configuration file to create a conda environment:
conda env create -f env.yml
Activate the environment:
conda activate clam_latest
If you want to use CONCH as the pretrained encoder, install the package in the environment by running the following command:
pip install git+https://github.com/Mahmoodlab/CONCH.git
When done running experiments, to deactivate the environment:
conda deactivate clam_latest
Please report any issues in the public forum.