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Question: How to determine means for rlog value of biological duplicates calculated by DESeq2
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gravatar for JunLVI
12 months ago by
JunLVI40
Japan
JunLVI40 wrote:

Hi. I have used DESeq2 to performed differential analysis. 

And now I would like to plot the data using transformed values "rld", but not sure how to determine the means for the biological duplicates. The simplest way I could think of is use the arithmetic means. For normal log transformation, that would means using the geometric means of the biological duplicates. But even for that I am not sure that it is a legitimate way to do, let alone "rlog".

Any recommendation, thanks!

 

ADD COMMENTlink modified 12 months ago by Michael Love17k • written 12 months ago by JunLVI40
1
gravatar for Michael Love
12 months ago by
Michael Love17k
United States
Michael Love17k wrote:

hi,

I would take the simple arithmetic mean of rlog values if I wanted a "middle point".

ADD COMMENTlink written 12 months ago by Michael Love17k

@Michael Love, answer straightforward enough, thanks!

ADD REPLYlink written 12 months ago by JunLVI40
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