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Old 11-29-2010, 07:11 PM   #1
El Mariachi
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Smile About the read depth of coverage

Hello,

I am a beginner. I want to find all the copy number variations

in the genome of pig by the Illumina/Solexa Squencing but I do not

know what the coverage will be proper---20x, 10x, 5x, 1x, or smaller?

If the coverage is too high, the cost will also increase too much.

Thanks in advance.

Last edited by El Mariachi; 11-29-2010 at 07:14 PM.
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Old 11-30-2010, 04:50 AM   #2
drio
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Take a look to the CNV analysis tools in the wiki. Some of them have publications
associated. You'll see they work with pretty low coverage.
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Old 12-30-2010, 12:22 AM   #3
El Mariachi
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Quote:
Originally Posted by drio View Post
Take a look to the CNV analysis tools in the wiki. Some of them have publications
associated. You'll see they work with pretty low coverage.
Thank you for your suggestion, I am going to have a try between 1x and 4x.
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