dynast count --conversion

[Liangyan-1996]

Hi

We design a experiment which RNA labeled with s4U to inducing T>C conversion on mRNA. I would like to use dynast count to generate the adata object etc. Should I set the --conversion TC or --conversion TC,AG? Does it depend on the strandedness of my library?

I notice that in the scNT-seq/sci-fate tutorial, you just set --conversion TC. However, scNT-seq and sci-fate are unstranded library and there are roughly equal TC and AG mutations in their alignments. Does it means that we should just set the --conversion as the mutation on mRNA induced by experiment and do not consider library strandedness?

Yan