Question: what is the lowest coverage the human genome can be sequenced at to provide roughly the same resolution as SNP6?
gravatar for senowinski
20 months ago by
European Union
senowinski30 wrote:

What depth of coverage of the human genome would roughly provide the same copy number resolution of SNP6?

I want to know this so that I can calculate some kind of a b-allele-frequency at roughly the same frequency as SNP6? Where let's say there is a probe every ~0.00189Mb, would this mean a minimum depth of coverage of 2x? If there are gains and losses this would mean the allele frequency could then be calculated from bps where there are 4 reads mapped?

Thoughts please!


sequencing snp next-gen • 527 views
ADD COMMENTlink modified 20 months ago by Brian Bushnell16k • written 20 months ago by senowinski30
gravatar for Brian Bushnell
20 months ago by
Walnut Creek, USA
Brian Bushnell16k wrote:

2x sounds reasonable to me. To get an exact number, you should run a simulation at various levels of coverage and see what kind of sensitivity you get.

ADD COMMENTlink written 20 months ago by Brian Bushnell16k
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