Velocyto consists of two main components:
- A command line interface (CLI), that is used to run the pipeline that generates spliced/unspliced expression matrices.
- A library including functions to estimate RNA velocity from the above mentioned data matrices.
First make sure that velocyto is correctly installed following :ref:`this guide <install>`.
Running the CLI
.. toctree:: cli
Estimating RNA velocity
This guide covers the analysis and assumes that you have produced a .loom file using the velocyto CLI (follow the guide above).
.. toctree:: analysis