SEQanswers - Coverage required for Sanger based SNP detection and Genotyping

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gavin.oliver

08-12-2011 05:22 AM

Coverage required for Sanger based SNP detection and Genotyping

Does anyone know of an established acceptable figure in terms of times coverage required for SNP/calling and genotyping with Sanger sequences?

I know 20x is generally recommended for NGS but this is obviously a different scenario.

sciencewu

08-30-2011 12:54 AM

many papers using the Sanger sequences ,but didn't give a criteria . maybe 10x is enough.

prm36

08-30-2011 01:33 AM

We take 2x coverage for SNP calling in our lab.

Ventner's genome was done to 7.5x (http://www.nature.com/nrg/journal/v1...df/nrg2626.pdf)

Cheers

Paul

sciencewu

08-30-2011 01:41 AM

Did you get a good result ? what's FP and FN ?

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