implementation the Polyfit add-on to DESeq described in the paper "Improved error estimates for the analysis of differential expression from RNA-seq data"
Function to level out a P-value spectrum generated by the Polyfit extension of DESeq by fitting a quadratic function to the right hand portion of the spectrum, produce 'corrected' p-values and q-values using an adapted version of the Storey-Tibsharini procedure
Polyfit extensions to the DESeq functions nbinomTest and nbinomTestForMatrices which test for differences between the base means of two conditions (i.e., for differential expression in the case of RNA-Seq).