Entering edit mode
3.7 years ago
Dan
▴
180
Hello,
I used scanpy.pp.normalize_total function in SCANPY package to normalize the library to the same size. (https://scanpy.readthedocs.io/en/stable/generated/scanpy.pp.normalize_total.html#scanpy.pp.normalize_total)
I found the target_sum is different among kinds of literatures, some used 10K, some used CPM, and very rarely used median library size. I am not sure how to choose the library normalization size?
Thanks a lot