Installation

The stGCL package is developed based on the pytorch framework and can be implemented on both GPU and CPU. We recommend running the package on GPU. Please ensure that pytorch and CUDA are installed correctly. To run stGCL, all dependencies included in the file ‘requirements.txt’ need to be installed.

Please note that the current stGCL version has been tested on the Linux (Ubuntu 20.04) operating system.

Downloading stGCL code from https://github.com/RuiGaolab/stGCL

Now you can install the current release of stGCL by the following three ways:

1. PyPI: Directly install the package from PyPI

pip3 install stGCL
#Note: you need to make sure that the pip is for python3.

2. Github

Download the package from Github and install it locally:

git clone https://github.com/RuiGaolab/stGCL.git

cd stGCL

python setup.py build

python setup.py install --user

3. Anaconda

For convenience, we suggest using a separate conda environment for running stGCL. Please ensure annaconda3 is installed.

#create an environment called stGCL
conda create -n stGCL python=3.7

#activate your environment
conda activate stGCL

git clone https://github.com/RuiGaolab/stGCL.git

cd stGCL

python setup.py build

python setup.py install --user

conda deactivate