Plot read counts graph on transcript only using midpoint/start position of reads or the whole read
I would like to plot read counts graph for a transcript. I would like to use bars to represent read counts. Let's assume I have a read mapped to coordinate 100 and the length of that read is 25. My question is in the read counts graph, should I just draw a bar of height 1 at the start position 100, or draw 25 bars of height 1 from 100 to 124? Thanks in advance.
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My advice is to check out Gviz in R. Why reinvent the wheel?