I haven't been able to find a clear answer in the documentation: are the read counted as in all the transcripts they overlap or are they divided amongst them. If it's the second case, is it kosher to add the counts for all the transcripts of a given gene to get the "gene counts"?
I haven't been able to find a clear answer in the documentation: are the read counted as in all the transcripts they overlap or are they divided amongst them. If it's the second case, is it kosher to add the counts for all the transcripts of a given gene to get the "gene counts"?