subdomain allows identification of domains from segmentation-free analysis of
spatially-resolved transcriptomics. More generally it can be applied to any labeled 2D
grid data.
subdomain can currently be installed from GitHub via
pip install git+https://github.com/HiDiHlabs/SubDomain.gitFor detailed installation instructions please refer to the documentation.
For documentation of the package please refer to GitHub pages.
tbd
- Reduce dependencies by using a jax-based
- GMM library (e.g. https://github.com/adonath/gmmx ?); allows dropping pytorch dependencies
- K-means library (e.g. https://github.com/YosefLab/scib-metrics ?); allows dropping cupy dependencies
- Test benefits of GPU acceleration. Currently likely memory constrained. Switch to CPU-only clustering?
This project is licensed under the MIT License - for details please refer to the LICENSE file.