Question: Dispersion shrinkage in DESeq2: LOESS instead of negative binomial based GLM?
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gravatar for chenggyan
7 days ago by
chenggyan0
chenggyan0 wrote:

DESeq2 uses GLM with negative binomial distibution to shrink variance. It seems that GLM is used because the expression variance is different for gene with different expression level and a ordinary linear model is not suited. I am wonder if it is possible to model this regressor using LOESS instead of GLM?

deseq2 rna-seq • 32 views
ADD COMMENTlink modified 7 days ago by Michael Love25k • written 7 days ago by chenggyan0
Answer: Dispersion shrinkage in DESeq2: LOESS instead of negative binomial based GLM?
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gravatar for Michael Love
7 days ago by
Michael Love25k
United States
Michael Love25k wrote:

Take a look at the DESeq2 paper from 2014. A couple of parts to the method are being conflated in your question.

Also see the vignette on the “local” dispersion estimation.

ADD COMMENTlink written 7 days ago by Michael Love25k
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