Calculation of ambiguous counts for RNA velocity

[MarcelloZago]

Under what assumptions are extronic, intronic and ambiguous counts calculated in rna_velocity.py?

Here is a quick summary of the calculation:

(total_counts and  extronic_counts are given)
intronic_counts = total_counts - extronic_counts
ambiguous_counts = total_counts - extronic_counts -  @intronic_counts

By definition, ambiguous_counts will always be 0. Thus I am wondering whether everything in this calculation is right. When I look into the resulting loom files, I also see that the intronic_counts are way too high, which is usual in normal suspension-based datasets. #

[tanliwei-coder]

The data of BGI only contains counts and exoncounts, we only can calculate the intronic_counts and extronic_counts.