Scale data in Visium tutorial? #question

[Jieran-S]

Couldn't find anything in exisitng/closed issue so I asked here.

Thank you for implementing those concise yet comprehensive tutorials. In Visium data processing tutorial, no scaling was done before PCA is conducted. Is there any specific reason for skipping this step?

Thanks in advance for the answer!

[flying-sheep]

The best place for questions is probably https://discourse.scverse.org/

That being said, I think scaling isn’t done commonly anymore because it densifies sparse data (which is heavy on the memory), and many analysis tools these days don’t need scaled data to work.