Spatial transcriptomics data analysis via interaction-aware cell embedding reveals cell communities with characteristic cell-cell interactions
SPACE (SPatial transcriptomics Analysis via Cell Embedding)
pip install space-srtinstall the latest develop version
git clone https://github.com/zhangqf-lab/SPACE.git
cd SPACE
python setup.py installSPACE is implemented in Pytorch framework.
SPACE can be run on CPU devices, and running SPACE on GPU devices if available is recommended.
A brief tutorial can be found here.（Still in progress）
If you use SPACE in your research, please cite our paper:
Li, Y., Zhang J., Gao, X., and Zhang, Q.C. Tissue module discovery in single-cell resolution spatial transcriptomics data via cell- cell interaction-aware cell embedding. Cell Systems 2024 (Accepted)
