GetPP: Generate the Posterior Probability of each transcript.

Description Usage Arguments Value Author(s) References See Also Examples

View source: R/GetPP.R

Description

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

Usage

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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

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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.