pyrovelocity 0.3.0b1

A multivariate RNA Velocity model to estimate future cell states with uncertainty using probabilistic modeling with pyro.

Pyro-Velocity

𝒫robabilistic modeling of RNA velocity ⬱

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Pyro-Velocity is a library for probabilistic inference in minimal models approximating gene expression dynamics from, possibly multimodal, single-cell sequencing data. It provides posterior estimates of gene expression parameters, predictive estimates of gene expression states, and local estimates of cell state transition probabilities. It can be used as a component in frameworks that attempt to retain the ability to propagate uncertainty in predicting: distributions over cell fates from subpopulations of cell states, response to cell state perturbations, or candidate genes or gene modules that correlate with determination of specific cell fates.

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Documentation 📒

Please see the Documentation.

Changelog 🔀

Changes for each release are listed in the Changelog.

Contributing ✨

Please review the Contributing Guide for instructions on setting up a development environment and submitting pull requests.

Community 🏘

If you would like to apply Pyro-Velocity in your research, have an idea for a new feature, have a problem using the library, or just want to chat, please feel free to start a discussion.

If you have a feature request or issue using Pyro-Velocity that may require making changes to the contents of this repository, please file an issue containing

• a GitHub permananent link to the location in the repository you think is causing a problem or will require changes, and
• provide a minimal reproducible example of the problem or proposed improvement.

We are always interested in discussions and issues that can help to improve the Documentation.

License ⚖️

AGPL