DESeq2 lfc shrinkage
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4.9 years ago
rthapa ▴ 60

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

rna-seq • 1.5k views
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3.5 years ago
lshepard ▴ 470

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.