DESeq2 lfc shrinkage
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4.0 years ago
rthapa ▴ 50

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

rna-seq • 1.3k views
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2.7 years ago
lshepard ▴ 460

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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