Entering edit mode
7 weeks ago
mt_pereira • 0
I am starting out with scRNA-seq preprocessing and quality control analysis through Scanpy.
I have found a tutorial and 2 of the steps are not completely clear for me and I would like to ask if anyone could help me out.
The first step that I do not get is the conversion of the count matrix into
The second is related to normalization - in two different tutorials I have found two different methods for normalization and I do not know which one is more adequate or if it does not make such a difference. The 2 commands are the following:
sc.pp.normalize_per_cell(adata, counts_per_cell_after=1e4) sc.pp.normalize_total(adata, target_sum=1e4)
Thank you so much in advance for your help!