Metadata-Version: 2.1
Name: exdyn
Version: 0.0.1
Summary: Analyze cell state dynamics dependent on extrinsic factors
Home-page: https://github.com/kojikoji/exdyn
Author: Kojima Yasuhiro
Author-email: tiisaishima@gmail.com
Project-URL: Bug Tracker, https://github.com/kojikoji/exdyn/issues
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.9
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: scanpy >=1.7.2
Requires-Dist: torch >=1.11.0
Requires-Dist: pytorch-lightning <1.7.0,>=1.6.1
Requires-Dist: scvelo >=0.2.3
Requires-Dist: pandas >=1.4.2
Requires-Dist: numpy >=1.21.6
Requires-Dist: functorch >=0.1.1
Requires-Dist: torchsde >=0.2.5
Requires-Dist: einops >=0.4.1
Requires-Dist: leidenalg >=0.8.9

# Exdyn
Exdyn is intended to analyze colocalization relation ships between single cell transcriptomes, integrating them with spatial transcriptome.

## Instalation
You can install exdyn using pip command from your shell.
```shell
pip install exdyn
```

## Usage
You need to prepare [`AnnData` objects](https://anndata.readthedocs.io/en/latest/) which includes spliced and unspliced transcript counts for single cell transcriptome respectively. You can see the usage in [IPython Notebook1](tutorial/sim_analysis_batched_experimental_conditions.ipynb) and [IPython Notebook2](tutorial/scc_analysis_colocalization_conditions.ipynb).
