VeloCycle
Manifold-constrained variational inference for RNA velocity of the cell cycle. This is the repository for the VeloCycle framework. Installation instructions and tutorials can be found below.
Getting started
Please refer to the installation instructions below as well as the tutorials contained in this repo.
Installation
You need to have Python 3.8 or newer installed.
We suggest installing VeloCycle in a separate conda environment, which for example can be created with the command:
conda create --name velocycle_env python==3.8
You will probably need to install git next:
conda install git
Then you can install VeloCycle using one of the following two approaches:
- Install the latest release on PyPI:
pip install velocycle
- Install the latest development version:
pip install git+https://github.com/lamanno-epfl/velocycle.git@main
Release notes
This is the initial release of VeloCycle corresponding to an upcoming preprint. These software are still under continuous development.
Contact
For questions and help requests, you can reach out to Alex Lederer and Gioele La Manno. We are happy to hear your feedback and comments! If you found a bug, please use the issue tracker.
Additional materials
For notebooks and data files not used in the tutorials included in this repo, but used in the original publication, please see the following Zenodo page and GEO, both of which are coming soon!.
Citation
Coming soon!
1 maintainer
Metadata
1 maintainer
Release files for velocycle 0.1.0.5
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