GetPP: Generate the Posterior Probability of each transcript.

In lengning/EBSeq: An R package for gene and isoform differential expression analysis of RNA-seq data

Description

'GetPP' generates the Posterior Probability of being DE of each transcript based on the EBTest output.

Usage

GetPP(EBout)

Arguments

EBout

The output of EBTest function.

Value

The poster probabilities of being DE.

Author(s)

Ning Leng

References

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)

See Also

GetPPMat

Examples

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)

lengning/EBSeq documentation built on May 21, 2019, 4:02 a.m.