Installation
===================================

The AgaeSMO package has been developed based on the pytorch framework and can be implemented with both GPU and CPU.

.. code-block:: python

    git clone https://github.com/LiuQuin/AgaeSMO.git

    cd AgaeSMO

    conda create -n AgaeSMO_env python=3.9 r-base=4.2.3

    conda activate AgaeSMO_env

    conda install pytorch==1.13.1 torchvision==0.14.1 torchaudio==0.13.1 pytorch-cuda=11.7 -c pytorch -c nvidia

    conda install scanpy pandas matplotlib seaborn numpy=1.26.4 ipywidgets python-louvain scikit-misc r-mclust rpy2==3.5.9

    conda install anaconda::ipykernel

    python -m ipykernel install --user --name AgaeSMO_env --display-name "AgaeSMO_env"

    python setup.py install