Geometric inference of cross-species transcriptome correspondence using Gromov–Wasserstein optimal transport.
Project description
Species-OT
Geometric inference of cross-species transcriptome correspondence using Gromov-Wasserstein optimal transport.
Installation
$ pip install speciesot
To create a virtual environment with all required dependencies, we recommend using Poetry:
$ poetry install
Requirements
-
Python3
-
Apple Silicon or NVIDIA GPUs (recommended)
Click here to learn how to utilize Apple Silicon's GPUs (official documentation).
Documentation
The tutorial is available here.
Preprint
Please see the following paper: Y. Tokuta et al. Geometric inference of cross-species transcriptome correspondence using Gromov-Wasserstein optimal transport. bioRxiv
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