I filtered out my raw count data for my gene list by filtering genes with <5 counts in at least 90% of all samples. Now I have a data frame with genes as rows and counts in 81 samples as columns. I tried running variance stabilizing transformation (vst) on this data frame by using the following code :
varianceStabilizingTransformation(myFilt, blind = FALSE)
However, I am getting this error:
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘estimateSizeFactors’ for signature ‘"data.frame"’
I know there are other posts that asked similar questions and I have tried to understand them but am still confused on why it is not working and giving me this error. Please, any help is appreciated.