Hi there, When I am running the DESeq pipeline on the dds object and getting this error message.
dds_res<-DESeq(dds_PvsN) estimating size factors Error in estimateSizeFactorsForMatrix(counts(object), locfunc = locfunc, : every gene contains at least one zero, cannot compute log geometric means In addition: Warning message: In class(object) <- "environment" : Setting class(x) to "environment" sets attribute to NULL; result will no longer be an S4 object
What strategy should be applied to resolve this conflict?
Thank you very much! Imran