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When someone performs a sequencing experiment, what determines how much sequencing data you get from the machine (Illumina, PacBio, Nanopore, etc). Or maybe, put differently, how does the machine know that it is done?

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On an Illumina machine, the instrument runs as many cycles as you tell it to. If you tell it to run 150 cycles, you will get 150-mers as output.

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  • $\begingroup$ Thanks for this, that explains read-length to an extent but what explains sequencing depth? $\endgroup$ – Colin D Feb 15 '17 at 15:36
  • $\begingroup$ Having more reads for your sample, which you get by giving your sample a higher % of the space on the flow cell. $\endgroup$ – swbarnes2 Feb 15 '17 at 21:24

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