Hi,
If I want to count the coverage base by base, not read by read, can I still use
countOverlaps? I have a human transcriptome done, and would like to count the
coverage for each gene based on the mapping. As there are some reads mapped
across the junctions (ie, one read is splitted into two portions), or partially
mapped into the introns, it would be good to count the coverage by base pair,
instead of by read number? Could anybody suggest a way doing that? Thanks.
-Kunbin
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