squeezing of dispersion in the deseq2 and edger.
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tonja.r ▴ 80
@tonjar-7565
Last seen 8.1 years ago
United Kingdom

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?
 

deseq2 edger • 1.1k views
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@mikelove
Last seen 14 hours ago
United States
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.
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