What is the best resource on learning how to use scanpy for single cell RNA-Seq analysis?
The scanpy vignettes themselves are actually pretty good. Just walk through them and the example analyses and they will cover most of the important processing concepts.
Specifically there is a separate web resource called ScanPy Tutorials here:
You can install scanpy and run those tutorials via Google Colab, for example here is a tutorial I am currently developing myself
Thank you. I've checked out your tutorial. It is very explanatory. You stopped at principal component analysis though, so I would check back on it in a month's time. Do you know if it would have been completed by then?
went on vacation, I plan to continue it once I am back
You can take a look at this best practices online resource from Fabian Theis lab.
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