[BioC] DESeq: how to get the variance information

[Simon Anders]

On 2012-01-14 07:48, Yuan Tian wrote:
> I'm using DESeq to analyze the RNA-seq data, and I would appreciate
> if anyone can tell me how to get the estimated variation from the
> dataset (in addition to the dispersion value, I would like to check
> the variance as well). It seems that we can use scvPlot to get the
> variance information, but this function has been removed in the
> current DESeq version...

The relation between dispersion and variance is

    variance = mean + dispersion * mean^2

This way, you can recover the variance. Note, however, the DESeq 
performs an additional bias correction that you miss in this simple way.

   Simon