GASTON-Mix is a spatial mixture-of-experts (MoE) model for learning domain-specific topographic maps of a tissue slice from spatially resolved transcriptomics (SRT) data.
We will make GASTON-Mix pip-installable soon. In the meanwhile, you can directly install the conda environment from the environment.yml file:
First install conda environment from environment.yml file:
conda env create -f environment.yml
Then install GASTON using pip (will add to pypi soon!)
conda activate gaston-mix pip install -e .
Installation should take <10 minutes.
- torch
- matplotlib
- pandas
- scikit-learn
- numpy
- jupyterlab
- seaborn
- tqdm
- scipy
- scanpy
See the environment.yml file for full list.
## Getting started Try out the Jupyter notebook tutorial: tutorial.ipynb.