Metadata-Version: 2.1
Name: scvelo
Version: 0.1.4
Summary: scvelo - stochastic single cell RNA velocity
Home-page: https://scvelo.readthedocs.io
License: BSD
Keywords: RNAseq singlecell stochastic velocity transcriptomics
Author: Volker Bergen
Author-email: volker.bergen@helmholtz-muenchen.de
Requires-Python: ~=3.6
Description-Content-Type: text/x-rst
Classifier: License :: OSI Approved :: BSD License
Classifier: Development Status :: 5 - Production/Stable
Classifier: Intended Audience :: Science/Research
Classifier: Natural Language :: English
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.6
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Visualization
Requires-Dist: scanpy~=1.3.1
Requires-Dist: get_version
Requires-Dist: setuptools
Requires-Dist: docutils; extra == "doc"
Requires-Dist: pytest; extra == "test"
Requires-Dist: loompy; extra == "test"
Provides-Extra: test
Provides-Extra: doc

scvelo – stochastic single cell RNA velocity 
============================================

|PyPI| |Docs| |travis|

**scvelo** is a scalable toolkit for estimating and analyzing stochastic RNA velocities in single cells.

RNA velocity is the time derivative of mRNA abundance obtained by distinguishing unspliced (precursor) from spliced
(mature) mRNA, and serves as a predictive indicator for the future state of an individual cell. The main principles
of RNA velocity estimation have been presented in
velocyto_ (`La Manno et al., 2018 <https://doi.org/10.1038/s41586-018-0414-6>`_)
and are based on a deterministic model of transcriptional dynamics. scvelo uses a stochastic formulation and
incorporates intrinsic expression variability.

It is compatible with scanpy_ (`Wolf et al., 2018 <https://doi.org/10.1186/s13059-017-1382-0>`_). Making use of sparse
implementation, iterative neighbors search and other techniques, it is remarkably efficient in terms of memory and
runtime without loss in accuracy (<1GB and <1min for 30,000 cells on a MacBook Pro 2017 with 2.3 GHz i5).

For getting started, read the documentation_ and take a look at some exemplary notebooks_.


.. |PyPI| image:: https://img.shields.io/pypi/v/scvelo.svg
    :target: https://pypi.org/project/scvelo
    
.. |Docs| image:: https://readthedocs.org/projects/scvelo/badge/?version=latest
   :target: https://scvelo.readthedocs.io

.. |travis| image:: https://travis-ci.org/theislab/scvelo.svg?branch=master
   :target: https://travis-ci.org/theislab/scvelo
   
.. _velocyto: http://velocyto.org/
.. _scanpy: https://github.com/theislab/scanpy
.. _documentation: https://scvelo.readthedocs.io
.. _notebooks: https://nbviewer.jupyter.org/github/theislab/scvelo_notebooks/blob/master/DentateGyrus.ipynb

