Copy number variations from WES data
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19 months ago

Hi,

I want to derive copy number variation information from whole exome data. Please suggest which tool/pipeline should I refer?

CNV WES • 871 views
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  • Control-FREEC (shell)
  • DNAcopy (R)
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I mostly use VarScan for this job. it is pretty straight forward and designed specifically for exome sequencing.

http://varscan.sourceforge.net/copy-number-calling.html

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19 months ago
Rongxin ▴ 40

Hi,

Please see this paper Comparative study of whole exome sequencing-based copy number variation detection tools, which may provide you with some suggestions.

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