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velovi

velovi#

Tests Documentation

🚧 :warning: This package is no longer being actively developed or maintained. Please use the scvi-tools package instead. See this thread for more details. :warning: 🚧

Variational inference for RNA velocity. This is an experimental repo for the veloVI model. Installation instructions and tutorials are in the docs.

Getting started#

Please refer to the documentation.

Installation#

You need to have Python 3.8 or newer installed on your system. If you don’t have Python installed, we recommend installing Miniconda.

There are several alternative options to install velovi:

  1. Install the latest release on PyPI:

pip install velovi

  1. Install the latest development version:

pip install git+https://github.com/yoseflab/velovi.git@main

Release notes#

See the changelog.

Contact#

For questions and help requests, you can reach out in the scverse discourse. If you found a bug, please use the issue tracker.

Citation#

@article{gayoso2022deep,
  title={Deep generative modeling of transcriptional dynamics for RNA velocity analysis in single cells},
  author={Gayoso, Adam and Weiler, Philipp and Lotfollahi, Mohammad and Klein, Dominik and Hong, Justin and Streets, Aaron M and Theis, Fabian J and Yosef, Nir},
  journal={bioRxiv},
  pages={2022--08},
  year={2022},
  publisher={Cold Spring Harbor Laboratory}
}

Welcome to the velovi documentation.

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