Question: Interpreting the EstimateDispersion plot from the DEXSeq package
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gravatar for brand
21 months ago by
brand0
brand0 wrote:

Dear all, if have a question regarding a result that I obtained using the DEXSeq package. I analysed a set of five samples of an siRNA kd (3 control, 2 treatment). When plotting the estimated dispersion plot show below was generated. I've been searching for explanations and understanding for a while, but I guess I'm a bit lost by now and I would appreciate any hint. What puzzles me ist the fact that the fitted curve furcates for genes with low normalised counts and high dispersion. I have seen some unexpected dispersion plots during my search but nothing alike. In addition is my interpretation that a lot of genes seem to be very variable between replicates correct? I checked whether I've chosen the correct experimental design. 

Best,

Lennart

 

 

 

 

 

dexseq estimatedispersions • 333 views
ADD COMMENTlink modified 21 months ago • written 21 months ago by brand0

Weird. Did you by any chance ran estimateDispersions several times on the same DEXSeqDataSet object?

ADD REPLYlink written 19 months ago by Alejandro Reyes1.7k
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