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Old 07-10-2019, 03:40 AM   #235
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Location: East Coast USA

Join Date: Feb 2008
Posts: 6,975

Unfortunately Brian would be the only person who can provide an authoritative answer and he no longer participates on this forum. You may want to try emailing him with your question directly.

BBMap provides a wide range of coverage/histogram/stats outputs. Default output (while voluminous does not contain coverage stats) but mainly contains % alignments which most users want to see by default. In-line help (run without any options/inputs) details different options available for coverage/histogram/stats outputs.
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