EBSeq_NingLeng-package: EBSeq: RNA-Seq Differential Expression Analysis on both gene...

EBSeq_NingLeng-packageR Documentation

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

Author(s)

Ning Leng, Christina Kendziorski

Maintainer: Ning Leng <nleng@wisc.edu>

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)

wiscstatman/EBSeq documentation built on June 3, 2023, 7:34 a.m.