Summary of the code I used for my internship at the UMC, Utrecht @ Translational Neuroscience
Both my analysis in Seurat and ScanPy are shown. This is a back-up, but I have put it on public for my PhD applications.
A paper based on my work was prepublished at https://www.biorxiv.org/content/10.1101/2020.07.23.217729v1.full
For Seurat: R & https://satijalab.org/
For ScanPy/ScVelo: Python & https://scanpy.readthedocs.io/ & https://scvelo.readthedocs.io/