RNA velocity estimation in R
The easiest way to install velocyto.R is using devtools::install_github() from R:
library(devtools)
install_github("velocyto-team/velocyto.R")
The example shows how to annotate SMART-seq2 reads from bam file and estimate RNA velocity.
The example shows how to load spliced/unspliced matrices from loom files prepared by velocyto.py CLI, use pagoda2 to cluster/embed cells, and then visualize RNA velocity on that embedding.