Trying to understand capacity of flow cells for targeted genotyping by sequencing

[TreyWill]

Hi everyone,

I'm relatively new to NGS. I work with a lab that is a part of a larger company that provides genotyping services in the area of PCR and NGS. Typically, for SNP densities less than say 200, we go with PCR and for higher, NGS is more economical.

The question I have relates to how to calculate how many samples can be run on typical nova seq S2 or S4 flow cells? I'm sure it depends on species, depth, and maybe other factors I'm not thinking of. Is there any resource out there that helps calculate these things or could someone help explain how I can do these calculations?

Thank you!
Trey

[GenomicSeq]

Hey there TreyWill


I posted two links below. The first tells you the output of the NovaSeq for each flow cell type. The second resource will help you determine the coverage you would need for your experiment with each Illumina device. There are also a lot of links with the calculator that explains how some of these values are determined.

I would also note that your output could be different from the ones shown on the site. You should check with your group's previous runs to see their normal output and how much data they expect to get from each run.

https://www.illumina.com/systems/sequencing-platforms/novaseq/specifications.html

http://support.illumina.com/downloads/sequencing_coverage_calculator.html