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.

Getting Started

First make sure that velocyto is correctly installed following this guide.

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).