RNA velocity generalized through dynamical modeling
scVelo - RNA velocity generalized through dynamical modeling
scVelo is a scalable toolkit for RNA velocity analysis in single cells. The methods are based on our preprint Bergen et al. (2019).
RNA velocity enables the recovery of directed dynamic information by leveraging splicing information. scVelo generalizes the concept of RNA velocity (La Manno et al., 2018) by relaxing previously made assumptions with a stochastic and a dynamical model that solves the full transcriptional dynamics. It thereby adapts RNA velocity to widely varying specifications such as non-stationary populations.
scVelo is compatible with scanpy and hosts efficient implementations of all RNA velocity models.
See https://scvelo.org for documentation and tutorials.
scVelo’s key applications
- estimate RNA velocity to study cellular dynamics.
- identify putative driver genes and regimes of regulatory changes.
- infer a latent time to reconstruct the temporal sequence of transcriptomic events.
- estimate reaction rates of transcription, splicing and degradation.
- use statistical tests, e.g., to detect different kinetics regimes.
Bergen et al. (2019), Generalizing RNA velocity to transient cell states through dynamical modeling, biorxiv.
Release history Release notifications | RSS feed
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
|Filename, size||File type||Python version||Upload date||Hashes|
|Filename, size scvelo-0.2.0-py3-none-any.whl (216.1 kB)||File type Wheel||Python version py3||Upload date||Hashes View|
|Filename, size scvelo-0.2.0.tar.gz (188.9 kB)||File type Source||Python version None||Upload date||Hashes View|