GetMultiPP {EBSeq} | R Documentation |
'GetMultiPP' generates the Posterior Probability of being each pattern of each transcript based on the EBMultiTest output.
GetMultiPP(EBout)
EBout |
The output of EBMultiTest function. |
PP |
The poster probabilities of being each pattern. |
MAP |
Gives the most likely pattern. |
Patterns |
The Patterns. |
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(MultiGeneMat) MultiGeneMat.small = MultiGeneMat[201:210,] Conditions = c("C1","C1","C2","C2","C3","C3") PosParti = GetPatterns(Conditions) Parti = PosParti[-3,] MultiSize = MedianNorm(MultiGeneMat.small) MultiOut = EBMultiTest(MultiGeneMat.small, NgVector=NULL, Conditions=Conditions, AllParti=Parti, sizeFactors=MultiSize, maxround=5) MultiPP = GetMultiPP(MultiOut)