Normalised data

[Imm123]

Hi, I would like to ask you about normalisation
If I have rawCounts, what do you think it is the best way to do it?

Thanks

[ShellyCoder]

There are two normalization factors, one is the library size of each cell, the other is gene length. Depend on your sequence technology to correct your data. If your data is UMI scRNAseq which is not affected by gene length, you can jues correct library size with CPM.

It's my opinion, wish it provide some help.
Best wishes.