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Old 04-28-2014, 09:59 PM   #1
Junior Member
Location: bangalore, india

Join Date: Jul 2013
Posts: 2
Exclamation Error in VST package of DESeq

Hi guys,
Is the VST package of DESeq still functional? Because most of the functions of VST including getVarianceStabilizedData() seem to be dysfunctional in R version 3.0.1 and DESeq version 1.12.1. Please help. Is this just a version trouble?
ayana.rajagopal is offline   Reply With Quote
Old 04-30-2014, 12:01 PM   #2
Wolfgang Huber
Senior Member
Location: Heidelberg, Germany

Join Date: Aug 2009
Posts: 109

Dear Ayana

the DESeq package is still supported including the getVarianceStabilizedData function etc. It is not clear what you mean by 'dysfunctional'? If you have a problem, can you please post a reproducible example of the code you are running and in what ways it does not do what you think it should.

In addition:
  • we now recommend using DESeq2 for new projects.
  • you might benefit from using a newer R (current release is R3.1)

Hope this helps - best wishes

Wolfgang Huber
Wolfgang Huber is offline   Reply With Quote

deseq, vst

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