1 Answers
stonelakeak@nih.gov Staff answered 3 years ago
If adapters and sequencing primers are properly trimmed off followed by purging of reads aligning to the blacklisted region, one can expect > 80-85% reads to align to the genome. This number is also assuming that there is no significant contaminant in your sample. – answered by Tovah Markowitz, Paul Schaughency, Vishal Koparde.
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