Spatial transcriptomics data analysis via interaction-aware cell embedding reveals cell communities with characteristic cell-cell interactions
SPACE (SPatial transcriptomics Analysis via Cell Embedding)
Installation
install from PyPI
pip install space-srt
install from GitHub
install the latest develop version
git clone https://github.com/zhangqf-lab/SPACE.git
cd SPACE
python setup.py install
SPACE is implemented in Pytorch framework.
SPACE can be run on CPU devices, and running SPACE on GPU devices if available is recommended.
Tutorial
A brief tutorial can be found here.（Still in progress）
Citation
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)
1 maintainer
Metadata
1 maintainer
Release files for space-srt 0.7.0
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| space_srt-0.7.0.tar.gz | 11.2 kB | Without provenance | Details |
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| space_srt-0.7.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 24.1 kB
Release files / space_srt-0.7.0.tar.gz
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| Download URL | space_srt-0.7.0-py3-none-any.whl |
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| Tags | Python 3 |
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