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DESeq2 lfc shrinkage

Hi! How can we determine the coefficient value while applying lfcShrink() with the coefficient argument? Thanks

rna-seq
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updated by lshepard lshepard • written by rthapa • rthapa

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It has been a while but I just saw this. To not leave it unanswered in case others come across this: check the potential coefficients from using the function resultsNames(dds) [dds: object name to DESeqDataSet]

Further, check the section of the vignette called "Note on factor levels", to change the reference group if needed.

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written by lshepard lshepard

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