Spatial siloutte score for spatial transcriptomics
Extending the standard Silhouette score with penalty to account for spatial contiguity
Create an environment if necessary
conda create -n sss python==3.10.0
conda activate sss
install requirements
pip install -r requirements.txt
install SSS package
pip install git+https://github.com/InfOmics/spatial_ss.git
run_SSS.py contains the SSS test pipeline.
The spatial transcriptomics datasets are available at: https://doi.org/10.5281/zenodo.15277298
