Tweet
What would be the benefit from using 2 x 8bp dual indexes vs say... 1 x 16bp single index for a paired end read?
-
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:
-
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
-
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
-
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
-
I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM
Comment