Question: cn.mops normalization of multiple samples
0
gravatar for DannyM
3 months ago by
DannyM0
Germany
DannyM0 wrote:

Hi,

I have two questions regarding cn.mops for CNV detection.

  1. If I would like to analyze tumor sample of different stages, should I normalize all stages together or stage-wise, when comparing to normal tissue.

  2. For CNV detection must there be a median/mean calculation over samples or is cn.mops able to handle mutiple samples, like

    referencecn.mops(rowmeans(X[,1:10]), rowmeans(X[,11:19]), ...

    or

    referencecn.mops(X[,1:10], X[,11:19], ... ad what happens here ? What is calculated for the samples in the first and second range?

cn.mops • 57 views
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