sensoryfates_paper
Code for reproducibiliy
required forked packages:
Logic of the analysis
- QC and preprocessing of raw count matrices in R using pagoda2 R package.
- RNA velocity analysis of raw spliced/unspliced count matrices in python using scvelo package. Mapping velocity on UMAP generated during the preprocessing part.
- Pseudotime analysis, including count matrix correction with scde R package, tree fitting using ElPiGraph.R and downstream pseudotime analysis using crestree R package
Citation
Faure, L., Wang, Y., Kastriti, M.E. et al. Single cell RNA sequencing identifies early diversity of sensory neurons forming via bi-potential intermediates. Nat Commun 11, 4175 (2020). https://doi.org/10.1038/s41467-020-17929-4