We consider a multiple testing procedure used in many modern applications which is the qvalue method proposed by Storey and Tibshirani (2003), <doi:10.1073/pnas.1530509100>. The qvalue method is based on the false discovery rate (FDR), hence versions of the qvalue method can be defined depending on which estimator of the proportion of true null hypotheses, p0, is plugged in the FDR estimator. We implement the qvalue method based on two classical pi0 estimators, and furthermore, we propose and implement three versions of the qvalue method for homogeneous discrete uniform Pvalues based on pi0 estimators which take into account the discrete distribution of the Pvalues.
Package details 


Author  Marta Cousido Rocha [aut, cre], José Carlos Soage González [ctr], Jacobo de Uña Álvarez [aut, ths], Sebastian Döhler [aut] 
Maintainer  Marta Cousido Rocha <martacousido@uvigo.es> 
License  GPL2 
Version  1.1 
Package repository  View on CRAN 
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