Question: what is the lowest coverage the human genome can be sequenced at to provide roughly the same resolution as SNP6?
gravatar for senowinski
2.4 years 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 • 655 views
ADD COMMENTlink modified 2.4 years ago by Brian Bushnell17k • written 2.4 years ago by senowinski30
gravatar for Brian Bushnell
2.4 years ago by
Walnut Creek, USA
Brian Bushnell17k 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 2.4 years ago by Brian Bushnell17k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2059 users visited in the last hour