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Old 05-22-2017, 06:20 AM   #2
fkrueger
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Location: Cambridge, UK

Join Date: Sep 2009
Posts: 597
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In the vast majority of cases when people want to remove multiple different adapter it turns out that they do not actually want to do that. If you ran standard sequencing (e.g. TruSeq, Sanger iTag etc.) all of the sequences share the first 13bp of the standard adapter sequence 'AGATCGGAAGAGC' , and only diverge after this point. This is also true for different indexes used in the adapters. Thus, running Trim Galore in its default mode is just the right thing to do, and there is no need specify a long list of all different index options. Good luck! Felix
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