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Old 06-03-2019, 01:46 AM   #675
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Location: us

Join Date: May 2011
Posts: 8

Has anyone used bbmap for QuantSeq Data Analysis (more precisely the QuantSeq FWD protocol). The Lexogen website recommends bbduk for quality trimming and suggests use of STAR for downstream analysis.

Is it possible to do something similar (to STAR) with bbmap? In other words, is there an analogous bbmap command similar to how one does mapping with STAR (using the genome index and gtf together)?

Thanks in advance.
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