Question: squeezing of dispersion in the deseq2 and edger.
gravatar for tonja.r
2.8 years ago by
United Kingdom
tonja.r40 wrote:

In DESeq2 paper:
edgeR [2,3] moderates the dispersion estimate for each gene toward a common estimate across all genes, or toward a local estimate from genes with similar expres- sion strength, using a weighted conditional likelihood. 

However, as far as I understood the dispersion estimate in DESeq2 is also squeezed toward a common estimate but it controls for the amount of shrinkage.

Is it correct?

ADD COMMENTlink modified 2.8 years ago by Michael Love20k • written 2.8 years ago by tonja.r40
gravatar for Michael Love
2.8 years ago by
Michael Love20k
United States
Michael Love20k wrote:
The dispersion moderation approach is very similar in DESeq2 to DSS and to edgeR. These short descriptions (short by necessity) in the Introduction or beginning of Results are not as helpful as going straight for the Methods section for each of the software packages.
ADD COMMENTlink written 2.8 years ago by Michael Love20k
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