Illumina Genome Analyzer - Single End Vs Paired End
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Entering edit mode
11.0 years ago
Bio_X2Y ★ 4.0k

From a machine/protocol perspective, how are paired-end reads treated differently from single-end reads by the Illumina Genome Analyzer?

My background isn't in biology, so I find the documentation a little difficult to follow.

In particular, I'm interested in the following:

  • Are two separate clusters generated on the same flowcell for each fragment, one corresponding to each end?
  • Are two sets of images output by the system, one for each end?
  • Where does the Illumina Paired-End Module fit in? Is it used to generate the clusters differently, or does it have something to do with the imaging?

I am happy to split these into separate questions if people feel they cover too many topics, although I suspect an explanation might cover them all.

illumina paired • 11k views
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Entering edit mode
7.2 years ago
ofanoyi ▴ 140

http://thegenomefactory.blogspot.com/2013/08/paired-end-read-confusion-library.html

This post explained well as far as I can tell.

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