GetPP {EBSeq} | R Documentation |
'GetPP' generates the Posterior Probability of being DE of each transcript based on the EBTest output.
GetPP(EBout)
EBout |
The output of EBTest function. |
The poster probabilities of being DE.
Ning Leng
Ning Leng, John A. Dawson, James A. Thomson, Victor Ruotti, Anna I. Rissman, Bart M.G. Smits, Jill D. Haag, Michael N. Gould, Ron M. Stewart, and Christina Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments. Bioinformatics (2013)
GetPPMat
data(GeneMat) GeneMat.small = GeneMat[c(1:10,500:550),] Sizes = MedianNorm(GeneMat.small) EBOut = EBTest(Data = GeneMat.small, Conditions = as.factor(rep(c("C1","C2"), each=5)), sizeFactors = Sizes, maxround = 5) PPDE = GetPP(EBOut) str(PPDE) head(PPDE)