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What would be the benefit from using 2 x 8bp dual indexes vs say... 1 x 16bp single index for a paired end read?
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Last edited by Ingeneious; 01-16-2015, 05:07 PM. -
One good reason is to identify barcode swapping between samples that can happen during PCR:
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How many adapters or primers would you need for each of those scenarios to identify a given number of samples?Providing nextRAD genotyping and PacBio sequencing services. http://snpsaurus.comComment
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Thanks, this makes sense. According to the paper, it looks like contamination is also an issue, if you pool after PCR.Originally posted by atcghelix View PostComment
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I think SNPsaurus's point is more important, however. You can get by with far fewer distinct adapters by using the combinatorial aspects of a two-index system.Comment
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