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.
Running the CLI¶
This guide explains how to run the counting pipeline. This starts from .bam/.sam files and yields a .loom file with counts divided in the categories spliced/unspliced/ambiguous.