EBSeq (version 1.12.0)

EBSeq_NingLeng-package: EBSeq: RNA-Seq Differential Expression Analysis on both gene and isoform level

Description

In 'EBSeq_NingLeng-package,' a Negative Binomial-beta model was built to analyze the RNASeq data. We used the empirical bayes method and EM algrithom.

Details

Package:

EBSeq_NingLeng

Type:

Package

Version:

1.0

Date:

2011-06-13

License:

What license is it under?

LazyLoad:

yes

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

EBTest, EBMultiTest

Examples

data(GeneMat)
GeneMat.small = GeneMat[c(1:10,511:550),]
Sizes = MedianNorm(GeneMat.small)
EBOut = EBTest(Data=GeneMat.small, 
	Conditions=as.factor(rep(c("C1","C2"), each=5)), 
	sizeFactors=Sizes, maxround=5)